Perform RNA-seq simulation
mock_rnaseq.RdSimulates RNA-seq data based on the input variables.
Usage
mock_rnaseq(
list_var,
n_genes,
min_replicates = NULL,
max_replicates = NULL,
sequencing_depth = NULL,
basal_expression = 0,
dispersion = stats::runif(n_genes, min = 0, max = 1000),
normal_distr = "univariate",
generate_counts = TRUE
)Arguments
- list_var
List of input variables
- n_genes
Number of genes
- min_replicates
Minimum number of replicates (mandatory when generate_counts = TRUE). If min_replicates is different from max replicates, the number of replicates is randomly selected from a uniform distribution between min and max replicates.
- max_replicates
Maximum replicates number (mandotory only if generate_counts = TRUE) If min_replicates is different from max replicates, the number of replicates is randomly selected from a uniform distribution between min and max replicates.
- sequencing_depth
Sequencing depth
- basal_expression
base expression gene
- dispersion
User-provided dispersion vector (optional)
- normal_distr
Specifies the distribution type for generating effects. Choose between 'univariate' (default) or 'multivariate' .
'univariate': Effects are drawn independently from univariate normal distributions.
'multivariate': Effects are drawn jointly from a multivariate normal distribution. (not recommended)
- generate_counts
Logical indicating whether to generate counts (default = TRUE). If TRUE, gene expression counts will be generated. If FALSE, gene expression counts will not be generated. Useful for scenarios where you plan to combine mock objects later to save computing time and resources. When using
combine_mock_rnaseq, counts will be generated during combination.
Examples
mock_rnaseq(list_var = init_variable(),
n_genes = 1000, min_replicates = 2,
max_replicates = 4)
#> Variable name should not contain digits, spaces, or special characters.
#> If any of these are present, they will be removed from the variable name.
#> Building mu_ij matrix
#> INFO: 244 genes have all(mu_ij) < 1, indicating very low counts. Consider removing them for future analysis using prepareData2fit with row_threshold = 10. To detect them in future experiment, try increasing sequencing depth.
#> k_ij ~ Nbinom(mu_ij, dispersion)
#> Counts simulation: Done
#> $settings
#> parameters values
#> 1 # genes 1000
#> 2 Max # replicates 2
#> 3 Min # replicates 4
#> 4 Library size 7226
#>
#> $init
#> $init$myVariable
#> mu sd level
#> 1 0 0.2 2
#>
#>
#> $groundTruth
#> $groundTruth$effects
#> geneID label_myVariable myVariable log_qij basalExpr
#> 1 gene1 myVariable1 0.0500735601 0.0500735601 0
#> 2 gene1 myVariable2 -0.0946611666 -0.0946611666 0
#> 3 gene10 myVariable1 -0.1254207832 -0.1254207832 0
#> 4 gene10 myVariable2 0.4171476921 0.4171476921 0
#> 5 gene100 myVariable1 0.0330317299 0.0330317299 0
#> 6 gene100 myVariable2 -0.3804052572 -0.3804052572 0
#> 7 gene1000 myVariable1 -0.3302727416 -0.3302727416 0
#> 8 gene1000 myVariable2 -0.0658701058 -0.0658701058 0
#> 9 gene101 myVariable1 -0.3504523932 -0.3504523932 0
#> 10 gene101 myVariable2 -0.4951668650 -0.4951668650 0
#> 11 gene102 myVariable1 -0.0416314349 -0.0416314349 0
#> 12 gene102 myVariable2 0.0953393143 0.0953393143 0
#> 13 gene103 myVariable1 0.0578764602 0.0578764602 0
#> 14 gene103 myVariable2 0.0562914145 0.0562914145 0
#> 15 gene104 myVariable1 -0.3245295127 -0.3245295127 0
#> 16 gene104 myVariable2 0.0508352852 0.0508352852 0
#> 17 gene105 myVariable1 0.2680922366 0.2680922366 0
#> 18 gene105 myVariable2 -0.0226225601 -0.0226225601 0
#> 19 gene106 myVariable1 0.0606900266 0.0606900266 0
#> 20 gene106 myVariable2 0.1478356075 0.1478356075 0
#> 21 gene107 myVariable1 0.0866762084 0.0866762084 0
#> 22 gene107 myVariable2 0.2390914700 0.2390914700 0
#> 23 gene108 myVariable1 -0.2319696742 -0.2319696742 0
#> 24 gene108 myVariable2 0.0948813477 0.0948813477 0
#> 25 gene109 myVariable1 -0.0532491518 -0.0532491518 0
#> 26 gene109 myVariable2 0.1656947454 0.1656947454 0
#> 27 gene11 myVariable1 -0.0504362566 -0.0504362566 0
#> 28 gene11 myVariable2 0.2553093795 0.2553093795 0
#> 29 gene110 myVariable1 0.1702033584 0.1702033584 0
#> 30 gene110 myVariable2 -0.0201708206 -0.0201708206 0
#> 31 gene111 myVariable1 -0.1048601241 -0.1048601241 0
#> 32 gene111 myVariable2 -0.5316511020 -0.5316511020 0
#> 33 gene112 myVariable1 -0.0087421034 -0.0087421034 0
#> 34 gene112 myVariable2 -0.1000726606 -0.1000726606 0
#> 35 gene113 myVariable1 -0.0522626435 -0.0522626435 0
#> 36 gene113 myVariable2 0.1940234390 0.1940234390 0
#> 37 gene114 myVariable1 -0.2631465794 -0.2631465794 0
#> 38 gene114 myVariable2 0.2868008568 0.2868008568 0
#> 39 gene115 myVariable1 -0.0273404072 -0.0273404072 0
#> 40 gene115 myVariable2 -0.3658328525 -0.3658328525 0
#> 41 gene116 myVariable1 0.0314217932 0.0314217932 0
#> 42 gene116 myVariable2 -0.0602059096 -0.0602059096 0
#> 43 gene117 myVariable1 -0.2817258398 -0.2817258398 0
#> 44 gene117 myVariable2 -0.1132738253 -0.1132738253 0
#> 45 gene118 myVariable1 0.3338333958 0.3338333958 0
#> 46 gene118 myVariable2 -0.0252694629 -0.0252694629 0
#> 47 gene119 myVariable1 0.2411246718 0.2411246718 0
#> 48 gene119 myVariable2 -0.0191914400 -0.0191914400 0
#> 49 gene12 myVariable1 -0.0827112064 -0.0827112064 0
#> 50 gene12 myVariable2 0.1140540593 0.1140540593 0
#> 51 gene120 myVariable1 -0.2069488596 -0.2069488596 0
#> 52 gene120 myVariable2 0.0997693454 0.0997693454 0
#> 53 gene121 myVariable1 0.0424498998 0.0424498998 0
#> 54 gene121 myVariable2 -0.0943116201 -0.0943116201 0
#> 55 gene122 myVariable1 0.3586693187 0.3586693187 0
#> 56 gene122 myVariable2 0.1301673427 0.1301673427 0
#> 57 gene123 myVariable1 -0.1210998540 -0.1210998540 0
#> 58 gene123 myVariable2 0.1952984194 0.1952984194 0
#> 59 gene124 myVariable1 -0.1011543977 -0.1011543977 0
#> 60 gene124 myVariable2 0.2709912610 0.2709912610 0
#> 61 gene125 myVariable1 -0.0650682364 -0.0650682364 0
#> 62 gene125 myVariable2 0.2703780428 0.2703780428 0
#> 63 gene126 myVariable1 0.1797258782 0.1797258782 0
#> 64 gene126 myVariable2 -0.1410145070 -0.1410145070 0
#> 65 gene127 myVariable1 0.1509462398 0.1509462398 0
#> 66 gene127 myVariable2 0.3293002455 0.3293002455 0
#> 67 gene128 myVariable1 -0.6502704890 -0.6502704890 0
#> 68 gene128 myVariable2 -0.1301981181 -0.1301981181 0
#> 69 gene129 myVariable1 -0.0644747766 -0.0644747766 0
#> 70 gene129 myVariable2 0.1729016535 0.1729016535 0
#> 71 gene13 myVariable1 0.0867945323 0.0867945323 0
#> 72 gene13 myVariable2 0.1075962378 0.1075962378 0
#> 73 gene130 myVariable1 0.0511886308 0.0511886308 0
#> 74 gene130 myVariable2 -0.3326113403 -0.3326113403 0
#> 75 gene131 myVariable1 -0.1441272296 -0.1441272296 0
#> 76 gene131 myVariable2 0.0500161085 0.0500161085 0
#> 77 gene132 myVariable1 -0.3036402480 -0.3036402480 0
#> 78 gene132 myVariable2 0.0894015792 0.0894015792 0
#> 79 gene133 myVariable1 0.1800641799 0.1800641799 0
#> 80 gene133 myVariable2 0.0519642976 0.0519642976 0
#> 81 gene134 myVariable1 0.2035931378 0.2035931378 0
#> 82 gene134 myVariable2 0.1228542700 0.1228542700 0
#> 83 gene135 myVariable1 -0.0478816024 -0.0478816024 0
#> 84 gene135 myVariable2 -0.3606298562 -0.3606298562 0
#> 85 gene136 myVariable1 0.0026851353 0.0026851353 0
#> 86 gene136 myVariable2 -0.0134657373 -0.0134657373 0
#> 87 gene137 myVariable1 0.3357510837 0.3357510837 0
#> 88 gene137 myVariable2 -0.0502914425 -0.0502914425 0
#> 89 gene138 myVariable1 -0.1710497756 -0.1710497756 0
#> 90 gene138 myVariable2 0.0058636610 0.0058636610 0
#> 91 gene139 myVariable1 -0.0704178975 -0.0704178975 0
#> 92 gene139 myVariable2 -0.2736090329 -0.2736090329 0
#> 93 gene14 myVariable1 -0.0929261252 -0.0929261252 0
#> 94 gene14 myVariable2 0.2428578843 0.2428578843 0
#> 95 gene140 myVariable1 0.0969226781 0.0969226781 0
#> 96 gene140 myVariable2 -0.1400754025 -0.1400754025 0
#> 97 gene141 myVariable1 -0.0329757859 -0.0329757859 0
#> 98 gene141 myVariable2 0.0916030315 0.0916030315 0
#> 99 gene142 myVariable1 0.0738992670 0.0738992670 0
#> 100 gene142 myVariable2 0.1629305987 0.1629305987 0
#> 101 gene143 myVariable1 -0.0864570090 -0.0864570090 0
#> 102 gene143 myVariable2 0.2308754089 0.2308754089 0
#> 103 gene144 myVariable1 0.3030522898 0.3030522898 0
#> 104 gene144 myVariable2 0.0435787050 0.0435787050 0
#> 105 gene145 myVariable1 0.0680895283 0.0680895283 0
#> 106 gene145 myVariable2 0.2586183710 0.2586183710 0
#> 107 gene146 myVariable1 0.3213386083 0.3213386083 0
#> 108 gene146 myVariable2 -0.0947007964 -0.0947007964 0
#> 109 gene147 myVariable1 0.0688538350 0.0688538350 0
#> 110 gene147 myVariable2 -0.2191578723 -0.2191578723 0
#> 111 gene148 myVariable1 0.2072300478 0.2072300478 0
#> 112 gene148 myVariable2 0.0582938630 0.0582938630 0
#> 113 gene149 myVariable1 -0.2660111623 -0.2660111623 0
#> 114 gene149 myVariable2 0.2399223215 0.2399223215 0
#> 115 gene15 myVariable1 0.1323897830 0.1323897830 0
#> 116 gene15 myVariable2 -0.1851600595 -0.1851600595 0
#> 117 gene150 myVariable1 -0.0260670360 -0.0260670360 0
#> 118 gene150 myVariable2 -0.0859997973 -0.0859997973 0
#> 119 gene151 myVariable1 -0.1893657428 -0.1893657428 0
#> 120 gene151 myVariable2 -0.1953896938 -0.1953896938 0
#> 121 gene152 myVariable1 0.0512213543 0.0512213543 0
#> 122 gene152 myVariable2 0.1005725405 0.1005725405 0
#> 123 gene153 myVariable1 0.0147672179 0.0147672179 0
#> 124 gene153 myVariable2 0.1721724084 0.1721724084 0
#> 125 gene154 myVariable1 -0.1449091186 -0.1449091186 0
#> 126 gene154 myVariable2 -0.3680762964 -0.3680762964 0
#> 127 gene155 myVariable1 0.0485761974 0.0485761974 0
#> 128 gene155 myVariable2 -0.2826715651 -0.2826715651 0
#> 129 gene156 myVariable1 -0.3461837200 -0.3461837200 0
#> 130 gene156 myVariable2 -0.0746212924 -0.0746212924 0
#> 131 gene157 myVariable1 0.0713259023 0.0713259023 0
#> 132 gene157 myVariable2 0.3378017500 0.3378017500 0
#> 133 gene158 myVariable1 -0.0483853431 -0.0483853431 0
#> 134 gene158 myVariable2 -0.0159626069 -0.0159626069 0
#> 135 gene159 myVariable1 0.2392296325 0.2392296325 0
#> 136 gene159 myVariable2 0.0775920454 0.0775920454 0
#> 137 gene16 myVariable1 -0.1556532037 -0.1556532037 0
#> 138 gene16 myVariable2 0.1812436009 0.1812436009 0
#> 139 gene160 myVariable1 0.3663467014 0.3663467014 0
#> 140 gene160 myVariable2 -0.1937664401 -0.1937664401 0
#> 141 gene161 myVariable1 -0.2440060834 -0.2440060834 0
#> 142 gene161 myVariable2 -0.0486679962 -0.0486679962 0
#> 143 gene162 myVariable1 0.2752918456 0.2752918456 0
#> 144 gene162 myVariable2 0.1415755511 0.1415755511 0
#> 145 gene163 myVariable1 -0.4048611863 -0.4048611863 0
#> 146 gene163 myVariable2 -0.1606694531 -0.1606694531 0
#> 147 gene164 myVariable1 -0.0348183762 -0.0348183762 0
#> 148 gene164 myVariable2 0.1015750270 0.1015750270 0
#> 149 gene165 myVariable1 0.1198493967 0.1198493967 0
#> 150 gene165 myVariable2 0.2903427444 0.2903427444 0
#> 151 gene166 myVariable1 0.2771905401 0.2771905401 0
#> 152 gene166 myVariable2 0.1872149403 0.1872149403 0
#> 153 gene167 myVariable1 0.2157224383 0.2157224383 0
#> 154 gene167 myVariable2 -0.1090857433 -0.1090857433 0
#> 155 gene168 myVariable1 -0.0478451186 -0.0478451186 0
#> 156 gene168 myVariable2 0.1940794044 0.1940794044 0
#> 157 gene169 myVariable1 0.1061938543 0.1061938543 0
#> 158 gene169 myVariable2 0.0567577075 0.0567577075 0
#> 159 gene17 myVariable1 0.1563349731 0.1563349731 0
#> 160 gene17 myVariable2 -0.0514130529 -0.0514130529 0
#> 161 gene170 myVariable1 -0.1084452203 -0.1084452203 0
#> 162 gene170 myVariable2 0.0303525434 0.0303525434 0
#> 163 gene171 myVariable1 0.0770902507 0.0770902507 0
#> 164 gene171 myVariable2 0.3459993780 0.3459993780 0
#> 165 gene172 myVariable1 0.4478374589 0.4478374589 0
#> 166 gene172 myVariable2 0.3970029364 0.3970029364 0
#> 167 gene173 myVariable1 0.3808505849 0.3808505849 0
#> 168 gene173 myVariable2 0.0272771946 0.0272771946 0
#> 169 gene174 myVariable1 -0.0913629475 -0.0913629475 0
#> 170 gene174 myVariable2 -0.1992601864 -0.1992601864 0
#> 171 gene175 myVariable1 0.0184147894 0.0184147894 0
#> 172 gene175 myVariable2 0.0877517048 0.0877517048 0
#> 173 gene176 myVariable1 -0.1917334929 -0.1917334929 0
#> 174 gene176 myVariable2 0.4600827532 0.4600827532 0
#> 175 gene177 myVariable1 -0.2587176144 -0.2587176144 0
#> 176 gene177 myVariable2 -0.2383437000 -0.2383437000 0
#> 177 gene178 myVariable1 0.1413024967 0.1413024967 0
#> 178 gene178 myVariable2 -0.5867517581 -0.5867517581 0
#> 179 gene179 myVariable1 -0.0517111367 -0.0517111367 0
#> 180 gene179 myVariable2 -0.2139040981 -0.2139040981 0
#> 181 gene18 myVariable1 -0.2397112398 -0.2397112398 0
#> 182 gene18 myVariable2 -0.2070241320 -0.2070241320 0
#> 183 gene180 myVariable1 0.2132757872 0.2132757872 0
#> 184 gene180 myVariable2 -0.1279508116 -0.1279508116 0
#> 185 gene181 myVariable1 -0.0224672350 -0.0224672350 0
#> 186 gene181 myVariable2 0.1156734626 0.1156734626 0
#> 187 gene182 myVariable1 -0.0052441841 -0.0052441841 0
#> 188 gene182 myVariable2 -0.2277267444 -0.2277267444 0
#> 189 gene183 myVariable1 0.1362772152 0.1362772152 0
#> 190 gene183 myVariable2 -0.1683862561 -0.1683862561 0
#> 191 gene184 myVariable1 -0.1002602779 -0.1002602779 0
#> 192 gene184 myVariable2 -0.2515622264 -0.2515622264 0
#> 193 gene185 myVariable1 0.4162366791 0.4162366791 0
#> 194 gene185 myVariable2 -0.1992543533 -0.1992543533 0
#> 195 gene186 myVariable1 -0.2693636500 -0.2693636500 0
#> 196 gene186 myVariable2 -0.1842678677 -0.1842678677 0
#> 197 gene187 myVariable1 0.6048741864 0.6048741864 0
#> 198 gene187 myVariable2 0.5127147304 0.5127147304 0
#> 199 gene188 myVariable1 0.2004270277 0.2004270277 0
#> 200 gene188 myVariable2 0.1377917517 0.1377917517 0
#> 201 gene189 myVariable1 0.0635930069 0.0635930069 0
#> 202 gene189 myVariable2 -0.3725102838 -0.3725102838 0
#> 203 gene19 myVariable1 -0.1127742117 -0.1127742117 0
#> 204 gene19 myVariable2 -0.1952300811 -0.1952300811 0
#> 205 gene190 myVariable1 -0.1126955296 -0.1126955296 0
#> 206 gene190 myVariable2 0.1633839978 0.1633839978 0
#> 207 gene191 myVariable1 -0.2264653558 -0.2264653558 0
#> 208 gene191 myVariable2 0.0699026158 0.0699026158 0
#> 209 gene192 myVariable1 -0.0334365283 -0.0334365283 0
#> 210 gene192 myVariable2 -0.0075893901 -0.0075893901 0
#> 211 gene193 myVariable1 0.4781287630 0.4781287630 0
#> 212 gene193 myVariable2 -0.1393158105 -0.1393158105 0
#> 213 gene194 myVariable1 0.1715739055 0.1715739055 0
#> 214 gene194 myVariable2 0.2705385077 0.2705385077 0
#> 215 gene195 myVariable1 0.0491517968 0.0491517968 0
#> 216 gene195 myVariable2 0.1612649382 0.1612649382 0
#> 217 gene196 myVariable1 -0.1480049509 -0.1480049509 0
#> 218 gene196 myVariable2 -0.1208906889 -0.1208906889 0
#> 219 gene197 myVariable1 0.1706517103 0.1706517103 0
#> 220 gene197 myVariable2 -0.1680348330 -0.1680348330 0
#> 221 gene198 myVariable1 -0.0594596715 -0.0594596715 0
#> 222 gene198 myVariable2 0.2086730720 0.2086730720 0
#> 223 gene199 myVariable1 -0.5310129116 -0.5310129116 0
#> 224 gene199 myVariable2 -0.0292022969 -0.0292022969 0
#> 225 gene2 myVariable1 0.1111443598 0.1111443598 0
#> 226 gene2 myVariable2 0.0334560498 0.0334560498 0
#> 227 gene20 myVariable1 -0.3328955548 -0.3328955548 0
#> 228 gene20 myVariable2 0.2608580541 0.2608580541 0
#> 229 gene200 myVariable1 0.0224318526 0.0224318526 0
#> 230 gene200 myVariable2 0.0687875507 0.0687875507 0
#> 231 gene201 myVariable1 0.2575418257 0.2575418257 0
#> 232 gene201 myVariable2 0.1795450200 0.1795450200 0
#> 233 gene202 myVariable1 0.0724254266 0.0724254266 0
#> 234 gene202 myVariable2 0.0211379507 0.0211379507 0
#> 235 gene203 myVariable1 -0.0263912317 -0.0263912317 0
#> 236 gene203 myVariable2 0.2135700487 0.2135700487 0
#> 237 gene204 myVariable1 0.1850525081 0.1850525081 0
#> 238 gene204 myVariable2 0.2647702159 0.2647702159 0
#> 239 gene205 myVariable1 0.2068443300 0.2068443300 0
#> 240 gene205 myVariable2 0.0295775259 0.0295775259 0
#> 241 gene206 myVariable1 0.0671446044 0.0671446044 0
#> 242 gene206 myVariable2 -0.1289221941 -0.1289221941 0
#> 243 gene207 myVariable1 -0.2091131419 -0.2091131419 0
#> 244 gene207 myVariable2 -0.2737266934 -0.2737266934 0
#> 245 gene208 myVariable1 -0.1014730368 -0.1014730368 0
#> 246 gene208 myVariable2 0.0285520734 0.0285520734 0
#> 247 gene209 myVariable1 -0.1045150944 -0.1045150944 0
#> 248 gene209 myVariable2 -0.0436557203 -0.0436557203 0
#> 249 gene21 myVariable1 -0.2404558525 -0.2404558525 0
#> 250 gene21 myVariable2 0.1819988406 0.1819988406 0
#> 251 gene210 myVariable1 -0.2397660530 -0.2397660530 0
#> 252 gene210 myVariable2 0.0574771383 0.0574771383 0
#> 253 gene211 myVariable1 0.2193473905 0.2193473905 0
#> 254 gene211 myVariable2 -0.1388929431 -0.1388929431 0
#> 255 gene212 myVariable1 -0.2711206453 -0.2711206453 0
#> 256 gene212 myVariable2 -0.0505019332 -0.0505019332 0
#> 257 gene213 myVariable1 -0.0052828449 -0.0052828449 0
#> 258 gene213 myVariable2 0.2455718008 0.2455718008 0
#> 259 gene214 myVariable1 0.1641666144 0.1641666144 0
#> 260 gene214 myVariable2 0.0273833908 0.0273833908 0
#> 261 gene215 myVariable1 0.2208857744 0.2208857744 0
#> 262 gene215 myVariable2 -0.1869585774 -0.1869585774 0
#> 263 gene216 myVariable1 -0.0637073354 -0.0637073354 0
#> 264 gene216 myVariable2 0.2364042783 0.2364042783 0
#> 265 gene217 myVariable1 0.0213627951 0.0213627951 0
#> 266 gene217 myVariable2 -0.2345742032 -0.2345742032 0
#> 267 gene218 myVariable1 0.2024619662 0.2024619662 0
#> 268 gene218 myVariable2 0.1187655462 0.1187655462 0
#> 269 gene219 myVariable1 -0.2009736784 -0.2009736784 0
#> 270 gene219 myVariable2 0.2498369383 0.2498369383 0
#> 271 gene22 myVariable1 -0.0244118550 -0.0244118550 0
#> 272 gene22 myVariable2 0.0188168979 0.0188168979 0
#> 273 gene220 myVariable1 -0.0260995148 -0.0260995148 0
#> 274 gene220 myVariable2 0.0315712424 0.0315712424 0
#> 275 gene221 myVariable1 0.3780019294 0.3780019294 0
#> 276 gene221 myVariable2 0.1251946228 0.1251946228 0
#> 277 gene222 myVariable1 -0.3370076002 -0.3370076002 0
#> 278 gene222 myVariable2 0.4499543926 0.4499543926 0
#> 279 gene223 myVariable1 -0.0720674444 -0.0720674444 0
#> 280 gene223 myVariable2 0.3430108360 0.3430108360 0
#> 281 gene224 myVariable1 -0.1286616098 -0.1286616098 0
#> 282 gene224 myVariable2 -0.0430731232 -0.0430731232 0
#> 283 gene225 myVariable1 0.1035074592 0.1035074592 0
#> 284 gene225 myVariable2 0.1782970825 0.1782970825 0
#> 285 gene226 myVariable1 0.0911732818 0.0911732818 0
#> 286 gene226 myVariable2 -0.1929110682 -0.1929110682 0
#> 287 gene227 myVariable1 -0.0659829586 -0.0659829586 0
#> 288 gene227 myVariable2 0.1259444717 0.1259444717 0
#> 289 gene228 myVariable1 0.0341135787 0.0341135787 0
#> 290 gene228 myVariable2 -0.0153186286 -0.0153186286 0
#> 291 gene229 myVariable1 -0.0558014589 -0.0558014589 0
#> 292 gene229 myVariable2 0.0411866178 0.0411866178 0
#> 293 gene23 myVariable1 0.2658351854 0.2658351854 0
#> 294 gene23 myVariable2 0.2284611683 0.2284611683 0
#> 295 gene230 myVariable1 0.0703720936 0.0703720936 0
#> 296 gene230 myVariable2 0.1797988449 0.1797988449 0
#> 297 gene231 myVariable1 -0.1906054546 -0.1906054546 0
#> 298 gene231 myVariable2 0.1300101556 0.1300101556 0
#> 299 gene232 myVariable1 -0.1327552344 -0.1327552344 0
#> 300 gene232 myVariable2 0.2709514584 0.2709514584 0
#> 301 gene233 myVariable1 -0.1734912323 -0.1734912323 0
#> 302 gene233 myVariable2 0.0102585233 0.0102585233 0
#> 303 gene234 myVariable1 0.3152059144 0.3152059144 0
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#> 1909 gene958 myVariable1 -0.2237533509 -0.2237533509 0
#> 1910 gene958 myVariable2 0.3675726720 0.3675726720 0
#> 1911 gene959 myVariable1 0.1283610881 0.1283610881 0
#> 1912 gene959 myVariable2 -0.0621807680 -0.0621807680 0
#> 1913 gene96 myVariable1 0.0309039495 0.0309039495 0
#> 1914 gene96 myVariable2 -0.1720307354 -0.1720307354 0
#> 1915 gene960 myVariable1 0.0028681376 0.0028681376 0
#> 1916 gene960 myVariable2 0.1472457664 0.1472457664 0
#> 1917 gene961 myVariable1 -0.0647165363 -0.0647165363 0
#> 1918 gene961 myVariable2 0.0777857410 0.0777857410 0
#> 1919 gene962 myVariable1 0.2210138054 0.2210138054 0
#> 1920 gene962 myVariable2 -0.0043723699 -0.0043723699 0
#> 1921 gene963 myVariable1 -0.1207379555 -0.1207379555 0
#> 1922 gene963 myVariable2 -0.2353686382 -0.2353686382 0
#> 1923 gene964 myVariable1 0.0836450028 0.0836450028 0
#> 1924 gene964 myVariable2 0.1943528880 0.1943528880 0
#> 1925 gene965 myVariable1 -0.0070675517 -0.0070675517 0
#> 1926 gene965 myVariable2 0.0981695431 0.0981695431 0
#> 1927 gene966 myVariable1 0.2470529324 0.2470529324 0
#> 1928 gene966 myVariable2 0.0070932847 0.0070932847 0
#> 1929 gene967 myVariable1 0.0639082597 0.0639082597 0
#> 1930 gene967 myVariable2 0.0444107275 0.0444107275 0
#> 1931 gene968 myVariable1 0.0980329062 0.0980329062 0
#> 1932 gene968 myVariable2 0.4793540601 0.4793540601 0
#> 1933 gene969 myVariable1 -0.1855490912 -0.1855490912 0
#> 1934 gene969 myVariable2 0.1114408531 0.1114408531 0
#> 1935 gene97 myVariable1 0.3001251211 0.3001251211 0
#> 1936 gene97 myVariable2 -0.0502565866 -0.0502565866 0
#> 1937 gene970 myVariable1 0.1287304567 0.1287304567 0
#> 1938 gene970 myVariable2 -0.2975301955 -0.2975301955 0
#> 1939 gene971 myVariable1 0.2654695251 0.2654695251 0
#> 1940 gene971 myVariable2 -0.1426220833 -0.1426220833 0
#> 1941 gene972 myVariable1 -0.2369560483 -0.2369560483 0
#> 1942 gene972 myVariable2 0.0153494961 0.0153494961 0
#> 1943 gene973 myVariable1 -0.0599179182 -0.0599179182 0
#> 1944 gene973 myVariable2 0.0034423059 0.0034423059 0
#> 1945 gene974 myVariable1 -0.1344546794 -0.1344546794 0
#> 1946 gene974 myVariable2 -0.0520710782 -0.0520710782 0
#> 1947 gene975 myVariable1 0.0227997374 0.0227997374 0
#> 1948 gene975 myVariable2 0.0648973584 0.0648973584 0
#> 1949 gene976 myVariable1 -0.0150492261 -0.0150492261 0
#> 1950 gene976 myVariable2 0.1688488403 0.1688488403 0
#> 1951 gene977 myVariable1 0.1421222863 0.1421222863 0
#> 1952 gene977 myVariable2 -0.2120949799 -0.2120949799 0
#> 1953 gene978 myVariable1 0.3123454722 0.3123454722 0
#> 1954 gene978 myVariable2 0.0206433243 0.0206433243 0
#> 1955 gene979 myVariable1 0.1667136552 0.1667136552 0
#> 1956 gene979 myVariable2 -0.0456857420 -0.0456857420 0
#> 1957 gene98 myVariable1 -0.0064394433 -0.0064394433 0
#> 1958 gene98 myVariable2 -0.0303108536 -0.0303108536 0
#> 1959 gene980 myVariable1 -0.0627822885 -0.0627822885 0
#> 1960 gene980 myVariable2 -0.2149454121 -0.2149454121 0
#> 1961 gene981 myVariable1 -0.0605013888 -0.0605013888 0
#> 1962 gene981 myVariable2 0.0489231881 0.0489231881 0
#> 1963 gene982 myVariable1 -0.2503222661 -0.2503222661 0
#> 1964 gene982 myVariable2 -0.3467842830 -0.3467842830 0
#> 1965 gene983 myVariable1 0.2557324212 0.2557324212 0
#> 1966 gene983 myVariable2 -0.2188109144 -0.2188109144 0
#> 1967 gene984 myVariable1 -0.0911950689 -0.0911950689 0
#> 1968 gene984 myVariable2 0.0580552310 0.0580552310 0
#> 1969 gene985 myVariable1 0.0446086871 0.0446086871 0
#> 1970 gene985 myVariable2 0.4640016035 0.4640016035 0
#> 1971 gene986 myVariable1 -0.1549481381 -0.1549481381 0
#> 1972 gene986 myVariable2 0.5616135845 0.5616135845 0
#> 1973 gene987 myVariable1 -0.1511921248 -0.1511921248 0
#> 1974 gene987 myVariable2 0.0458423209 0.0458423209 0
#> 1975 gene988 myVariable1 0.0195054969 0.0195054969 0
#> 1976 gene988 myVariable2 0.1966069962 0.1966069962 0
#> 1977 gene989 myVariable1 0.2368328829 0.2368328829 0
#> 1978 gene989 myVariable2 0.1989783300 0.1989783300 0
#> 1979 gene99 myVariable1 0.3003234950 0.3003234950 0
#> 1980 gene99 myVariable2 0.1222854472 0.1222854472 0
#> 1981 gene990 myVariable1 -0.0834442289 -0.0834442289 0
#> 1982 gene990 myVariable2 -0.0458791847 -0.0458791847 0
#> 1983 gene991 myVariable1 0.1874944805 0.1874944805 0
#> 1984 gene991 myVariable2 0.0543413701 0.0543413701 0
#> 1985 gene992 myVariable1 -0.1190341546 -0.1190341546 0
#> 1986 gene992 myVariable2 0.2996627815 0.2996627815 0
#> 1987 gene993 myVariable1 -0.1268755581 -0.1268755581 0
#> 1988 gene993 myVariable2 -0.0620124282 -0.0620124282 0
#> 1989 gene994 myVariable1 0.2831938889 0.2831938889 0
#> 1990 gene994 myVariable2 0.2054768650 0.2054768650 0
#> 1991 gene995 myVariable1 -0.2979832976 -0.2979832976 0
#> 1992 gene995 myVariable2 0.0195505804 0.0195505804 0
#> 1993 gene996 myVariable1 -0.0549417124 -0.0549417124 0
#> 1994 gene996 myVariable2 -0.1642340084 -0.1642340084 0
#> 1995 gene997 myVariable1 -0.1977475772 -0.1977475772 0
#> 1996 gene997 myVariable2 0.2271836729 0.2271836729 0
#> 1997 gene998 myVariable1 0.2179301456 0.2179301456 0
#> 1998 gene998 myVariable2 -0.0248355645 -0.0248355645 0
#> 1999 gene999 myVariable1 -0.0889008129 -0.0889008129 0
#> 2000 gene999 myVariable2 0.0091439297 0.0091439297 0
#> log_qij_scaled mu_ij
#> 1 0.0500735601 1.0513484
#> 2 -0.0946611666 0.9096811
#> 3 -0.1254207832 0.8821256
#> 4 0.4171476921 1.5176266
#> 5 0.0330317299 1.0335833
#> 6 -0.3804052572 0.6835843
#> 7 -0.3302727416 0.7187277
#> 8 -0.0658701058 0.9362525
#> 9 -0.3504523932 0.7043694
#> 10 -0.4951668650 0.6094692
#> 11 -0.0416314349 0.9592233
#> 12 0.0953393143 1.1000320
#> 13 0.0578764602 1.0595841
#> 14 0.0562914145 1.0579059
#> 15 -0.3245295127 0.7228674
#> 16 0.0508352852 1.0521496
#> 17 0.2680922366 1.3074677
#> 18 -0.0226225601 0.9776314
#> 19 0.0606900266 1.0625695
#> 20 0.1478356075 1.1593223
#> 21 0.0866762084 1.0905435
#> 22 0.2390914700 1.2700947
#> 23 -0.2319696742 0.7929702
#> 24 0.0948813477 1.0995284
#> 25 -0.0532491518 0.9481438
#> 26 0.1656947454 1.1802128
#> 27 -0.0504362566 0.9508145
#> 28 0.2553093795 1.2908609
#> 29 0.1702033584 1.1855459
#> 30 -0.0201708206 0.9800312
#> 31 -0.1048601241 0.9004505
#> 32 -0.5316511020 0.5876339
#> 33 -0.0087421034 0.9912960
#> 34 -0.1000726606 0.9047717
#> 35 -0.0522626435 0.9490796
#> 36 0.1940234390 1.2141247
#> 37 -0.2631465794 0.7686292
#> 38 0.2868008568 1.3321589
#> 39 -0.0273404072 0.9730300
#> 40 -0.3658328525 0.6936187
#> 41 0.0314217932 1.0319207
#> 42 -0.0602059096 0.9415706
#> 43 -0.2817258398 0.7544805
#> 44 -0.1132738253 0.8929061
#> 45 0.3338333958 1.3963105
#> 46 -0.0252694629 0.9750471
#> 47 0.2411246718 1.2726797
#> 48 -0.0191914400 0.9809915
#> 49 -0.0827112064 0.9206170
#> 50 0.1140540593 1.1208127
#> 51 -0.2069488596 0.8130612
#> 52 0.0997693454 1.1049160
#> 53 0.0424498998 1.0433638
#> 54 -0.0943116201 0.9099991
#> 55 0.3586693187 1.4314234
#> 56 0.1301673427 1.1390190
#> 57 -0.1210998540 0.8859455
#> 58 0.1952984194 1.2156737
#> 59 -0.1011543977 0.9037935
#> 60 0.2709912610 1.3112636
#> 61 -0.0650682364 0.9370035
#> 62 0.2703780428 1.3104598
#> 63 0.1797258782 1.1968892
#> 64 -0.1410145070 0.8684767
#> 65 0.1509462398 1.1629341
#> 66 0.3293002455 1.3899951
#> 67 -0.6502704890 0.5219046
#> 68 -0.1301981181 0.8779215
#> 69 -0.0644747766 0.9375598
#> 70 0.1729016535 1.1887492
#> 71 0.0867945323 1.0906726
#> 72 0.1075962378 1.1135980
#> 73 0.0511886308 1.0525214
#> 74 -0.3326113403 0.7170488
#> 75 -0.1441272296 0.8657776
#> 76 0.0500161085 1.0512880
#> 77 -0.3036402480 0.7381264
#> 78 0.0894015792 1.0935197
#> 79 0.1800641799 1.1972942
#> 80 0.0519642976 1.0533381
#> 81 0.2035931378 1.2257993
#> 82 0.1228542700 1.1307196
#> 83 -0.0478816024 0.9532466
#> 84 -0.3606298562 0.6972370
#> 85 0.0026851353 1.0026887
#> 86 -0.0134657373 0.9866245
#> 87 0.3357510837 1.3989907
#> 88 -0.0502914425 0.9509522
#> 89 -0.1710497756 0.8427796
#> 90 0.0058636610 1.0058809
#> 91 -0.0704178975 0.9320043
#> 92 -0.2736090329 0.7606294
#> 93 -0.0929261252 0.9112608
#> 94 0.2428578843 1.2748874
#> 95 0.0969226781 1.1017752
#> 96 -0.1400754025 0.8692927
#> 97 -0.0329757859 0.9675620
#> 98 0.0916030315 1.0959297
#> 99 0.0738992670 1.0766983
#> 100 0.1629305987 1.1769550
#> 101 -0.0864570090 0.9171750
#> 102 0.2308754089 1.2597023
#> 103 0.3030522898 1.3539853
#> 104 0.0435787050 1.0445422
#> 105 0.0680895283 1.0704611
#> 106 0.2586183710 1.2951394
#> 107 0.3213386083 1.3789724
#> 108 -0.0947007964 0.9096451
#> 109 0.0688538350 1.0712796
#> 110 -0.2191578723 0.8031949
#> 111 0.2072300478 1.2302656
#> 112 0.0582938630 1.0600265
#> 113 -0.2660111623 0.7664306
#> 114 0.2399223215 1.2711504
#> 115 0.1323897830 1.1415532
#> 116 -0.1851600595 0.8309713
#> 117 -0.0260670360 0.9742698
#> 118 -0.0859997973 0.9175944
#> 119 -0.1893657428 0.8274838
#> 120 -0.1953896938 0.8225141
#> 121 0.0512213543 1.0525559
#> 122 0.1005725405 1.1058039
#> 123 0.0147672179 1.0148768
#> 124 0.1721724084 1.1878826
#> 125 -0.1449091186 0.8651009
#> 126 -0.3680762964 0.6920644
#> 127 0.0485761974 1.0497754
#> 128 -0.2826715651 0.7537673
#> 129 -0.3461837200 0.7073825
#> 130 -0.0746212924 0.9280949
#> 131 0.0713259023 1.0739312
#> 132 0.3378017500 1.4018626
#> 133 -0.0483853431 0.9527666
#> 134 -0.0159626069 0.9841641
#> 135 0.2392296325 1.2702702
#> 136 0.0775920454 1.0806817
#> 137 -0.1556532037 0.8558559
#> 138 0.1812436009 1.1987071
#> 139 0.3663467014 1.4424553
#> 140 -0.1937664401 0.8238503
#> 141 -0.2440060834 0.7834829
#> 142 -0.0486679962 0.9524973
#> 143 0.2752918456 1.3169150
#> 144 0.1415755511 1.1520875
#> 145 -0.4048611863 0.6670694
#> 146 -0.1606694531 0.8515735
#> 147 -0.0348183762 0.9657808
#> 148 0.1015750270 1.1069130
#> 149 0.1198493967 1.1273271
#> 150 0.2903427444 1.3368856
#> 151 0.2771905401 1.3194177
#> 152 0.1872149403 1.2058865
#> 153 0.2157224383 1.2407579
#> 154 -0.1090857433 0.8966535
#> 155 -0.0478451186 0.9532814
#> 156 0.1940794044 1.2141927
#> 157 0.1061938543 1.1120374
#> 158 0.0567577075 1.0583993
#> 159 0.1563349731 1.1692178
#> 160 -0.0514130529 0.9498862
#> 161 -0.1084452203 0.8972280
#> 162 0.0303525434 1.0308179
#> 163 0.0770902507 1.0801396
#> 164 0.3459993780 1.4134017
#> 165 0.4478374589 1.5649243
#> 166 0.3970029364 1.4873603
#> 167 0.3808505849 1.4635289
#> 168 0.0272771946 1.0276526
#> 169 -0.0913629475 0.9126864
#> 170 -0.1992601864 0.8193367
#> 171 0.0184147894 1.0185854
#> 172 0.0877517048 1.0917170
#> 173 -0.1917334929 0.8255268
#> 174 0.4600827532 1.5842051
#> 175 -0.2587176144 0.7720410
#> 176 -0.2383437000 0.7879318
#> 177 0.1413024967 1.1517730
#> 178 -0.5867517581 0.5561308
#> 179 -0.0517111367 0.9496031
#> 180 -0.2139040981 0.8074258
#> 181 -0.2397112398 0.7868550
#> 182 -0.2070241320 0.8130000
#> 183 0.2132757872 1.2377260
#> 184 -0.1279508116 0.8798967
#> 185 -0.0224672350 0.9777833
#> 186 0.1156734626 1.1226292
#> 187 -0.0052441841 0.9947695
#> 188 -0.2277267444 0.7963418
#> 189 0.1362772152 1.1459995
#> 190 -0.1683862561 0.8450274
#> 191 -0.1002602779 0.9046019
#> 192 -0.2515622264 0.7775851
#> 193 0.4162366791 1.5162447
#> 194 -0.1992543533 0.8193415
#> 195 -0.2693636500 0.7638654
#> 196 -0.1842678677 0.8317130
#> 197 0.6048741864 1.8310218
#> 198 0.5127147304 1.6698182
#> 199 0.2004270277 1.2219244
#> 200 0.1377917517 1.1477365
#> 201 0.0635930069 1.0656586
#> 202 -0.3725102838 0.6890026
#> 203 -0.1127742117 0.8933523
#> 204 -0.1952300811 0.8226454
#> 205 -0.1126955296 0.8934226
#> 206 0.1633839978 1.1774888
#> 207 -0.2264653558 0.7973470
#> 208 0.0699026158 1.0724037
#> 209 -0.0334365283 0.9671163
#> 210 -0.0075893901 0.9924393
#> 211 0.4781287630 1.6130532
#> 212 -0.1393158105 0.8699532
#> 213 0.1715739055 1.1871719
#> 214 0.2705385077 1.3106701
#> 215 0.0491517968 1.0503798
#> 216 0.1612649382 1.1749962
#> 217 -0.1480049509 0.8624268
#> 218 -0.1208906889 0.8861308
#> 219 0.1706517103 1.1860776
#> 220 -0.1680348330 0.8453244
#> 221 -0.0594596715 0.9422735
#> 222 0.2086730720 1.2320421
#> 223 -0.5310129116 0.5880091
#> 224 -0.0292022969 0.9712200
#> 225 0.1111443598 1.1175562
#> 226 0.0334560498 1.0340220
#> 227 -0.3328955548 0.7168451
#> 228 0.2608580541 1.2980434
#> 229 0.0224318526 1.0226853
#> 230 0.0687875507 1.0712086
#> 231 0.2575418257 1.2937459
#> 232 0.1795450200 1.1966728
#> 233 0.0724254266 1.0751126
#> 234 0.0211379507 1.0213629
#> 235 -0.0263912317 0.9739540
#> 236 0.2135700487 1.2380902
#> 237 0.1850525081 1.2032816
#> 238 0.2647702159 1.3031315
#> 239 0.2068443300 1.2297911
#> 240 0.0295775259 1.0300193
#> 241 0.0671446044 1.0694501
#> 242 -0.1289221941 0.8790424
#> 243 -0.2091131419 0.8113034
#> 244 -0.2737266934 0.7605399
#> 245 -0.1014730368 0.9035055
#> 246 0.0285520734 1.0289636
#> 247 -0.1045150944 0.9007612
#> 248 -0.0436557203 0.9572835
#> 249 -0.2404558525 0.7862694
#> 250 0.1819988406 1.1996128
#> 251 -0.2397660530 0.7868119
#> 252 0.0574771383 1.0591611
#> 253 0.2193473905 1.2452638
#> 254 -0.1388929431 0.8703212
#> 255 -0.2711206453 0.7625245
#> 256 -0.0505019332 0.9507521
#> 257 -0.0052828449 0.9947311
#> 258 0.2455718008 1.2783521
#> 259 0.1641666144 1.1784106
#> 260 0.0273833908 1.0277618
#> 261 0.2208857744 1.2471810
#> 262 -0.1869585774 0.8294781
#> 263 -0.0637073354 0.9382796
#> 264 0.2364042783 1.2666863
#> 265 0.0213627951 1.0215926
#> 266 -0.2345742032 0.7909075
#> 267 0.2024619662 1.2244135
#> 268 0.1187655462 1.1261059
#> 269 -0.2009736784 0.8179340
#> 270 0.2498369383 1.2838161
#> 271 -0.0244118550 0.9758837
#> 272 0.0188168979 1.0189951
#> 273 -0.0260995148 0.9742381
#> 274 0.0315712424 1.0320749
#> 275 0.3780019294 1.4593658
#> 276 0.1251946228 1.1333690
#> 277 -0.3370076002 0.7139034
#> 278 0.4499543926 1.5682407
#> 279 -0.0720674444 0.9304681
#> 280 0.3430108360 1.4091840
#> 281 -0.1286616098 0.8792715
#> 282 -0.0430731232 0.9578413
#> 283 0.1035074592 1.1090541
#> 284 0.1782970825 1.1951803
#> 285 0.0911732818 1.0954588
#> 286 -0.1929110682 0.8245553
#> 287 -0.0659829586 0.9361468
#> 288 0.1259444717 1.1342192
#> 289 0.0341135787 1.0347021
#> 290 -0.0153186286 0.9847981
#> 291 -0.0558014589 0.9457269
#> 292 0.0411866178 1.0420466
#> 293 0.2658351854 1.3045200
#> 294 0.2284611683 1.2566647
#> 295 0.0703720936 1.0729073
#> 296 0.1797988449 1.1969766
#> 297 -0.1906054546 0.8264586
#> 298 0.1300101556 1.1388399
#> 299 -0.1327552344 0.8756794
#> 300 0.2709514584 1.3112114
#> 301 -0.1734912323 0.8407245
#> 302 0.0102585233 1.0103113
#> 303 0.3152059144 1.3705415
#> 304 0.1950833590 1.2154123
#> 305 0.1543381268 1.1668854
#> 306 -0.0209992583 0.9792197
#> 307 -0.1537878563 0.8574539
#> 308 0.2141402680 1.2387964
#> 309 -0.0359744761 0.9646649
#> 310 -0.2185261401 0.8037025
#> 311 -0.3894152280 0.6774529
#> 312 -0.3043158400 0.7376279
#> 313 -0.0308246888 0.9696455
#> 314 0.1772438679 1.1939222
#> 315 0.0534228346 1.0548756
#> 316 0.1249401829 1.1330807
#> 317 -0.2838517723 0.7528782
#> 318 0.0786418628 1.0818168
#> 319 -0.1703683596 0.8433541
#> 320 0.1456334379 1.1567721
#> 321 0.3432746351 1.4095558
#> 322 -0.0795158804 0.9235634
#> 323 0.0045739374 1.0045844
#> 324 0.2885386028 1.3344759
#> 325 -0.1769169962 0.8378493
#> 326 0.4613473163 1.5862097
#> 327 -0.0195268852 0.9806625
#> 328 -0.1025571176 0.9025266
#> 329 -0.0276293436 0.9727489
#> 330 0.2606834916 1.2978168
#> 331 -0.0470085213 0.9540793
#> 332 0.1090671358 1.1152372
#> 333 -0.2461467025 0.7818075
#> 334 -0.2724422929 0.7615174
#> 335 -0.0471761102 0.9539194
#> 336 -0.2498514899 0.7789165
#> 337 -0.3141163057 0.7304341
#> 338 0.2547959304 1.2901983
#> 339 0.2653358913 1.3038689
#> 340 -0.1419504390 0.8676643
#> 341 0.1674073695 1.1822358
#> 342 0.0125999341 1.0126796
#> 343 -0.0240981589 0.9761899
#> 344 0.3235633938 1.3820438
#> 345 0.2446901903 1.2772256
#> 346 0.0023469506 1.0023497
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#> 1738 -0.0087607755 0.9912775
#> 1739 0.0543843730 1.0558904
#> 1740 0.4995631658 1.6480012
#> 1741 -0.1269866971 0.8807454
#> 1742 -0.0142903891 0.9858112
#> 1743 0.0813985051 1.0848031
#> 1744 0.2206547815 1.2468929
#> 1745 -0.0665154028 0.9356485
#> 1746 0.0531220314 1.0545583
#> 1747 0.0326432281 1.0331819
#> 1748 -0.1869351425 0.8294975
#> 1749 0.1037860558 1.1093631
#> 1750 -0.0316652802 0.9688308
#> 1751 0.1070268197 1.1129641
#> 1752 -0.2572191297 0.7731988
#> 1753 0.2079272667 1.2311236
#> 1754 -0.0441702871 0.9567910
#> 1755 0.1415944032 1.1521093
#> 1756 -0.0144565217 0.9856475
#> 1757 -0.0639789530 0.9380247
#> 1758 0.0808486959 1.0842068
#> 1759 -0.0392582642 0.9615024
#> 1760 -0.0543689835 0.9470826
#> 1761 0.1586646751 1.1719449
#> 1762 0.1529238140 1.1652362
#> 1763 0.2471931815 1.2804264
#> 1764 -0.0910286262 0.9129916
#> 1765 0.2927411870 1.3400959
#> 1766 -0.4710376314 0.6243541
#> 1767 -0.2261033522 0.7976357
#> 1768 0.2630626692 1.3009082
#> 1769 0.2558523553 1.2915620
#> 1770 0.2439145389 1.2762353
#> 1771 -0.4784060792 0.6197705
#> 1772 0.0878599751 1.0918352
#> 1773 -0.0622445766 0.9396530
#> 1774 -0.0399977726 0.9607916
#> 1775 0.3324907704 1.3944370
#> 1776 -0.0696490831 0.9327211
#> 1777 0.1733663308 1.1893017
#> 1778 0.2188112460 1.2445963
#> 1779 0.2234168025 1.2503416
#> 1780 -0.0458320803 0.9552023
#> 1781 0.0591396230 1.0609234
#> 1782 0.0254361355 1.0257624
#> 1783 0.1979042454 1.2188457
#> 1784 0.1868005172 1.2053868
#> 1785 -0.0827512731 0.9205801
#> 1786 -0.0473324689 0.9537702
#> 1787 0.2846055645 1.3292376
#> 1788 0.0593802776 1.0611787
#> 1789 -0.0313600834 0.9691265
#> 1790 0.2257289210 1.2532359
#> 1791 -0.1378636390 0.8712175
#> 1792 -0.0098225805 0.9902255
#> 1793 -0.0147203827 0.9853874
#> 1794 0.2645993409 1.3029088
#> 1795 -0.1428705600 0.8668663
#> 1796 0.4403149333 1.5531963
#> 1797 -0.0505321664 0.9507233
#> 1798 0.1594312233 1.1728436
#> 1799 0.0086357530 1.0086731
#> 1800 -0.0800227803 0.9230953
#> 1801 0.3211769740 1.3787496
#> 1802 0.1994444162 1.2207244
#> 1803 0.0321704012 1.0326935
#> 1804 0.1123142769 1.1188644
#> 1805 -0.0224898339 0.9777612
#> 1806 -0.0556015779 0.9459159
#> 1807 -0.0360791952 0.9645639
#> 1808 0.2515448824 1.2860106
#> 1809 -0.1110819168 0.8948654
#> 1810 -0.1840523625 0.8318922
#> 1811 -0.1915805843 0.8256531
#> 1812 0.3914926417 1.4791870
#> 1813 -0.0155113975 0.9846083
#> 1814 -0.1647045467 0.8481443
#> 1815 -0.4492453544 0.6381095
#> 1816 0.1542291177 1.1667582
#> 1817 -0.1172301559 0.8893805
#> 1818 0.2551819391 1.2906964
#> 1819 -0.3556872528 0.7006917
#> 1820 -0.2725675683 0.7614220
#> 1821 -0.1357966783 0.8730201
#> 1822 -0.2561094406 0.7740573
#> 1823 -0.3139357452 0.7305660
#> 1824 -0.3803556596 0.6836182
#> 1825 0.0151558948 1.0152713
#> 1826 0.2447603964 1.2773152
#> 1827 0.1749246309 1.1911564
#> 1828 0.0069797527 1.0070042
#> 1829 0.0665979572 1.0688657
#> 1830 -0.2714812751 0.7622496
#> 1831 0.2692689828 1.3090072
#> 1832 -0.1133692289 0.8928209
#> 1833 -0.0627653915 0.9391638
#> 1834 -0.0398681809 0.9609161
#> 1835 -0.2801251649 0.7556891
#> 1836 -0.2463413557 0.7816554
#> 1837 -0.0677781062 0.9344678
#> 1838 0.0683797948 1.0707719
#> 1839 -0.2044967684 0.8150574
#> 1840 0.0209038514 1.0211239
#> 1841 -0.0224593085 0.9777910
#> 1842 -0.2263668501 0.7974255
#> 1843 -0.1584744747 0.8534447
#> 1844 -0.0531493716 0.9482384
#> 1845 0.1335530250 1.1428819
#> 1846 0.1917100449 1.2113192
#> 1847 0.1154691961 1.1223999
#> 1848 -0.3716947064 0.6895647
#> 1849 0.3818105196 1.4649345
#> 1850 0.1414829471 1.1519809
#> 1851 -0.2809481709 0.7550675
#> 1852 0.1588118458 1.1721174
#> 1853 -0.0893288713 0.9145448
#> 1854 -0.0190800759 0.9811008
#> 1855 0.2501524459 1.2842212
#> 1856 0.1034884312 1.1090330
#> 1857 -0.1754480053 0.8390810
#> 1858 -0.1221354300 0.8850285
#> 1859 0.3270074561 1.3868118
#> 1860 -0.1891498953 0.8276624
#> 1861 0.1682530732 1.1832360
#> 1862 0.0084970154 1.0085332
#> 1863 0.1578143410 1.1709488
#> 1864 0.0784313852 1.0815891
#> 1865 0.0885759544 1.0926172
#> 1866 0.1300585607 1.1388951
#> 1867 0.0496755065 1.0509300
#> 1868 0.2008653294 1.2224601
#> 1869 -0.1455716438 0.8645279
#> 1870 -0.0530227977 0.9483584
#> 1871 -0.1841828381 0.8317837
#> 1872 -0.0707441836 0.9317002
#> 1873 0.1202253889 1.1277510
#> 1874 -0.0248746089 0.9754322
#> 1875 0.2178140992 1.2433559
#> 1876 0.0341600555 1.0347502
#> 1877 -0.1161060674 0.8903808
#> 1878 0.0187521373 1.0189291
#> 1879 -0.4014825073 0.6693270
#> 1880 -0.2468416555 0.7812644
#> 1881 -0.0696561689 0.9327145
#> 1882 -0.2163020104 0.8054920
#> 1883 0.0843777997 1.0880399
#> 1884 0.1881934957 1.2070671
#> 1885 0.2408059280 1.2722741
#> 1886 0.2220216672 1.2485984
#> 1887 -0.1044192155 0.9008476
#> 1888 0.0616956841 1.0636386
#> 1889 -0.1056166583 0.8997695
#> 1890 0.0807471709 1.0840968
#> 1891 0.1424444207 1.1530890
#> 1892 0.0197285500 1.0199244
#> 1893 0.2746052312 1.3160111
#> 1894 -0.0085160320 0.9915201
#> 1895 0.1794665225 1.1965788
#> 1896 -0.6012685751 0.5481159
#> 1897 0.1560983085 1.1689411
#> 1898 0.0490289067 1.0502507
#> 1899 0.1981653660 1.2191640
#> 1900 0.1345017866 1.1439667
#> 1901 -0.0455851066 0.9554383
#> 1902 0.4194426789 1.5211136
#> 1903 0.0434289571 1.0443858
#> 1904 0.3227324393 1.3808958
#> 1905 -0.5096750222 0.6006908
#> 1906 0.5149480318 1.6735515
#> 1907 -0.1033131269 0.9018445
#> 1908 -0.1238016389 0.8835551
#> 1909 -0.2237533509 0.7995123
#> 1910 0.3675726720 1.4442247
#> 1911 0.1283610881 1.1369635
#> 1912 -0.0621807680 0.9397130
#> 1913 0.0309039495 1.0313864
#> 1914 -0.1720307354 0.8419533
#> 1915 0.0028681376 1.0028723
#> 1916 0.1472457664 1.1586387
#> 1917 -0.0647165363 0.9373331
#> 1918 0.0777857410 1.0808910
#> 1919 0.2210138054 1.2473407
#> 1920 -0.0043723699 0.9956372
#> 1921 -0.1207379555 0.8862662
#> 1922 -0.2353686382 0.7902795
#> 1923 0.0836450028 1.0872429
#> 1924 0.1943528880 1.2145248
#> 1925 -0.0070675517 0.9929574
#> 1926 0.0981695431 1.1031498
#> 1927 0.2470529324 1.2802469
#> 1928 0.0070932847 1.0071185
#> 1929 0.0639082597 1.0659946
#> 1930 0.0444107275 1.0454116
#> 1931 0.0980329062 1.1029991
#> 1932 0.4793540601 1.6150309
#> 1933 -0.1855490912 0.8306481
#> 1934 0.1114408531 1.1178876
#> 1935 0.3001251211 1.3500277
#> 1936 -0.0502565866 0.9509854
#> 1937 0.1287304567 1.1373835
#> 1938 -0.2975301955 0.7426502
#> 1939 0.2654695251 1.3040431
#> 1940 -0.1426220833 0.8670817
#> 1941 -0.2369560483 0.7890260
#> 1942 0.0153494961 1.0154679
#> 1943 -0.0599179182 0.9418418
#> 1944 0.0034423059 1.0034482
#> 1945 -0.1344546794 0.8741925
#> 1946 -0.0520710782 0.9492614
#> 1947 0.0227997374 1.0230616
#> 1948 0.0648973584 1.0670495
#> 1949 -0.0150492261 0.9850634
#> 1950 0.1688488403 1.1839412
#> 1951 0.1421222863 1.1527176
#> 1952 -0.2120949799 0.8088879
#> 1953 0.3123454722 1.3666267
#> 1954 0.0206433243 1.0208579
#> 1955 0.1667136552 1.1814159
#> 1956 -0.0456857420 0.9553421
#> 1957 -0.0064394433 0.9935812
#> 1958 -0.0303108536 0.9701439
#> 1959 -0.0627822885 0.9391479
#> 1960 -0.2149454121 0.8065855
#> 1961 -0.0605013888 0.9412925
#> 1962 0.0489231881 1.0501397
#> 1963 -0.2503222661 0.7785498
#> 1964 -0.3467842830 0.7069578
#> 1965 0.2557324212 1.2914071
#> 1966 -0.2188109144 0.8034736
#> 1967 -0.0911950689 0.9128396
#> 1968 0.0580552310 1.0597735
#> 1969 0.0446086871 1.0456186
#> 1970 0.4640016035 1.5904255
#> 1971 -0.1549481381 0.8564596
#> 1972 0.5616135845 1.7534996
#> 1973 -0.1511921248 0.8596825
#> 1974 0.0458423209 1.0469093
#> 1975 0.0195054969 1.0196970
#> 1976 0.1966069962 1.2172656
#> 1977 0.2368328829 1.2672293
#> 1978 0.1989783300 1.2201555
#> 1979 0.3003234950 1.3502956
#> 1980 0.1222854472 1.1300766
#> 1981 -0.0834442289 0.9199424
#> 1982 -0.0458791847 0.9551574
#> 1983 0.1874944805 1.2062236
#> 1984 0.0543413701 1.0558450
#> 1985 -0.1190341546 0.8877775
#> 1986 0.2996627815 1.3494037
#> 1987 -0.1268755581 0.8808433
#> 1988 -0.0620124282 0.9398712
#> 1989 0.2831938889 1.3273625
#> 1990 0.2054768650 1.2281106
#> 1991 -0.2979832976 0.7423137
#> 1992 0.0195505804 1.0197429
#> 1993 -0.0549417124 0.9465403
#> 1994 -0.1642340084 0.8485434
#> 1995 -0.1977475772 0.8205770
#> 1996 0.2271836729 1.2550604
#> 1997 0.2179301456 1.2435002
#> 1998 -0.0248355645 0.9754703
#> 1999 -0.0889008129 0.9149363
#> 2000 0.0091439297 1.0091859
#>
#> $groundTruth$gene_dispersion
#> gene1 gene2 gene3 gene4 gene5 gene6
#> 536.6033039 788.9910608 904.0402020 280.1742209 131.9462887 546.3536126
#> gene7 gene8 gene9 gene10 gene11 gene12
#> 55.9258319 143.5083640 764.8686850 300.2646188 665.0487750 433.0653697
#> gene13 gene14 gene15 gene16 gene17 gene18
#> 850.3328112 585.3020274 188.5095267 945.2174839 882.2563074 249.1000986
#> gene19 gene20 gene21 gene22 gene23 gene24
#> 405.1330732 494.7709604 773.2197619 863.4547843 303.4226662 426.3029478
#> gene25 gene26 gene27 gene28 gene29 gene30
#> 635.1959859 842.1571681 905.3945865 78.3147977 57.7217473 274.5803492
#> gene31 gene32 gene33 gene34 gene35 gene36
#> 975.2314442 784.2602849 898.9514236 65.3267088 906.3595985 641.2569906
#> gene37 gene38 gene39 gene40 gene41 gene42
#> 277.8384506 368.8498081 652.0674494 789.9140688 240.5544578 344.5326306
#> gene43 gene44 gene45 gene46 gene47 gene48
#> 522.5002391 988.9856747 452.4826719 762.9883799 169.2252494 669.5020972
#> gene49 gene50 gene51 gene52 gene53 gene54
#> 583.1567689 862.7707271 87.0087822 610.1937848 131.9462887 231.7254534
#> gene55 gene56 gene57 gene58 gene59 gene60
#> 842.1571681 287.1197707 489.6701190 239.0503238 199.3060068 594.3064857
#> gene61 gene62 gene63 gene64 gene65 gene66
#> 674.1774755 802.8303517 862.4198067 327.6344596 319.3770552 522.5002391
#> gene67 gene68 gene69 gene70 gene71 gene72
#> 727.5782218 361.3991835 795.4175123 645.1928110 296.8533810 573.8203332
#> gene73 gene74 gene75 gene76 gene77 gene78
#> 850.3328112 537.8421489 117.3969281 886.8190160 910.5444606 151.4258340
#> gene79 gene80 gene81 gene82 gene83 gene84
#> 267.8867320 699.2068165 944.3546126 820.3899697 282.6498752 190.5618059
#> gene85 gene86 gene87 gene88 gene89 gene90
#> 635.6757879 361.4136726 452.4826719 450.2557036 884.6550311 200.4326507
#> gene91 gene92 gene93 gene94 gene95 gene96
#> 465.2936275 532.6479792 367.4541099 494.9257569 386.0987511 644.3594894
#> gene97 gene98 gene99 gene100 gene101 gene102
#> 801.1010636 24.9069566 101.5609244 304.7040014 100.8995587 802.8303517
#> gene103 gene104 gene105 gene106 gene107 gene108
#> 190.8918968 367.4541099 94.3889921 963.3879052 70.1461048 478.7685536
#> gene109 gene110 gene111 gene112 gene113 gene114
#> 228.9885089 561.8461494 700.6705792 253.0840624 184.6283053 883.0294076
#> gene115 gene116 gene117 gene118 gene119 gene120
#> 633.3012672 80.2264065 156.2732765 576.1202101 443.9891074 549.0975159
#> gene121 gene122 gene123 gene124 gene125 gene126
#> 187.7479299 536.6033039 638.0274638 654.3545767 900.5284766 386.9552559
#> gene127 gene128 gene129 gene130 gene131 gene132
#> 936.8262144 936.6492538 33.6124601 582.6776596 151.4258340 243.1952432
#> gene133 gene134 gene135 gene136 gene137 gene138
#> 146.9112202 108.9927591 945.2174839 701.7564329 747.5317079 405.1330732
#> gene139 gene140 gene141 gene142 gene143 gene144
#> 758.6864829 507.1275481 457.8329227 753.5535004 8.3173264 177.7852490
#> gene145 gene146 gene147 gene148 gene149 gene150
#> 763.0472393 682.6669928 863.4547843 768.1988464 937.7479325 633.3012672
#> gene151 gene152 gene153 gene154 gene155 gene156
#> 677.5302361 148.7210777 650.2137873 100.3814794 88.0431964 499.5631953
#> gene157 gene158 gene159 gene160 gene161 gene162
#> 979.0257821 88.3317385 343.6875166 701.7564329 825.2453953 646.0208832
#> gene163 gene164 gene165 gene166 gene167 gene168
#> 304.7040014 563.5757942 857.1510736 727.2951757 472.0480738 676.8794078
#> gene169 gene170 gene171 gene172 gene173 gene174
#> 892.8965670 457.8329227 248.7163979 764.8686850 231.7254534 958.1318034
#> gene175 gene176 gene177 gene178 gene179 gene180
#> 190.1794418 149.3386771 343.6875166 713.2891794 177.8860448 911.3060236
#> gene181 gene182 gene183 gene184 gene185 gene186
#> 483.8900676 88.3317385 489.9145777 361.4136726 70.7123266 561.9636471
#> gene187 gene188 gene189 gene190 gene191 gene192
#> 804.0885278 942.8839684 920.1386471 296.8533810 928.8940360 166.0845643
#> gene193 gene194 gene195 gene196 gene197 gene198
#> 88.3317385 865.1065149 876.3631058 247.5267814 955.4578352 876.9914617
#> gene199 gene200 gene201 gene202 gene203 gene204
#> 612.2252990 553.8956274 641.6703248 33.6124601 983.9684663 548.7000372
#> gene205 gene206 gene207 gene208 gene209 gene210
#> 338.2919731 139.6084407 606.4066372 833.0976956 583.8384400 606.8832113
#> gene211 gene212 gene213 gene214 gene215 gene216
#> 998.5563860 408.5034868 906.0454140 641.6703248 233.0948026 531.7100978
#> gene217 gene218 gene219 gene220 gene221 gene222
#> 960.1551394 940.9578026 882.1959039 837.4446332 877.8916344 841.5543926
#> gene223 gene224 gene225 gene226 gene227 gene228
#> 164.7115320 258.2378369 837.4446332 298.8643860 67.1255724 319.3770552
#> gene229 gene230 gene231 gene232 gene233 gene234
#> 221.6512482 144.6948699 212.0025021 612.4693595 91.8561947 583.8384400
#> gene235 gene236 gene237 gene238 gene239 gene240
#> 582.0199400 129.1084245 831.2513500 236.7705374 254.1937164 922.1831036
#> gene241 gene242 gene243 gene244 gene245 gene246
#> 465.2936275 800.9484743 380.1430371 450.0668300 644.3594894 496.8669233
#> gene247 gene248 gene249 gene250 gene251 gene252
#> 897.2571909 795.4175123 896.9386581 884.6550311 296.1533177 361.2100745
#> gene253 gene254 gene255 gene256 gene257 gene258
#> 571.5322096 788.9910608 963.3879052 287.1197707 697.3346502 610.1937848
#> gene259 gene260 gene261 gene262 gene263 gene264
#> 144.6948699 954.8818078 968.8784278 949.5907428 89.3937729 408.5034868
#> gene265 gene266 gene267 gene268 gene269 gene270
#> 739.5404836 639.3577056 19.9185000 755.0549565 985.1511540 254.1937164
#> gene271 gene272 gene273 gene274 gene275 gene276
#> 651.0766437 654.9206048 421.1119642 153.1390790 887.2017318 370.6584137
#> gene277 gene278 gene279 gene280 gene281 gene282
#> 720.6382817 644.3594894 403.9998685 405.1330732 187.7479299 582.6776596
#> gene283 gene284 gene285 gene286 gene287 gene288
#> 45.9089032 633.3654388 236.7705374 423.5852142 763.0472393 286.2333041
#> gene289 gene290 gene291 gene292 gene293 gene294
#> 911.9772385 322.5682483 670.8345693 53.1602935 226.8753832 605.4651414
#> gene295 gene296 gene297 gene298 gene299 gene300
#> 897.2571909 51.3786874 958.1318034 202.6737409 421.1119642 837.4446332
#> gene301 gene302 gene303 gene304 gene305 gene306
#> 337.2462757 406.7871931 186.0838579 701.7564329 764.4692375 758.6864829
#> gene307 gene308 gene309 gene310 gene311 gene312
#> 900.5284766 645.1928110 597.2966333 298.1574014 832.3380386 89.3937729
#> gene313 gene314 gene315 gene316 gene317 gene318
#> 838.2614858 406.7871931 79.6683636 960.4475882 151.4258340 652.0674494
#> gene319 gene320 gene321 gene322 gene323 gene324
#> 669.5020972 30.9874194 109.6079412 177.8860448 53.1602935 413.5050038
#> gene325 gene326 gene327 gene328 gene329 gene330
#> 166.2487132 498.6706437 717.0069430 300.2646188 459.2825924 168.1485870
#> gene331 gene332 gene333 gene334 gene335 gene336
#> 10.6189095 989.1406421 349.4675192 239.0503238 88.0431964 91.8561947
#> gene337 gene338 gene339 gene340 gene341 gene342
#> 842.5310745 695.4828051 607.4879882 216.4007700 829.4587513 109.6079412
#> gene343 gene344 gene345 gene346 gene347 gene348
#> 327.6344596 777.3296745 604.7937092 58.1152660 37.8392115 920.1386471
#> gene349 gene350 gene351 gene352 gene353 gene354
#> 694.2767252 111.7446627 170.2378113 374.2812565 183.7224038 489.9145777
#> gene355 gene356 gene357 gene358 gene359 gene360
#> 860.0599808 947.0658062 472.2802790 247.4052426 305.3534168 53.1602935
#> gene361 gene362 gene363 gene364 gene365 gene366
#> 347.0582392 463.4099139 875.6941778 775.5118222 424.4416750 928.0577239
#> gene367 gene368 gene369 gene370 gene371 gene372
#> 164.7115320 259.2487156 316.3706425 327.9759521 659.0333395 802.8303517
#> gene373 gene374 gene375 gene376 gene377 gene378
#> 55.2915020 23.6169109 548.7000372 936.6492538 347.0952725 80.2264065
#> gene379 gene380 gene381 gene382 gene383 gene384
#> 56.0532471 18.5029581 710.5583574 682.6669928 416.5317847 571.5322096
#> gene385 gene386 gene387 gene388 gene389 gene390
#> 645.1928110 149.3386771 210.5039656 424.4416750 772.0706032 788.9910608
#> gene391 gene392 gene393 gene394 gene395 gene396
#> 142.1790761 511.5514949 381.4597158 591.3437000 230.4188642 307.2810245
#> gene397 gene398 gene399 gene400 gene401 gene402
#> 755.4809831 327.6344596 507.1275481 353.0005128 57.7339376 580.6216737
#> gene403 gene404 gene405 gene406 gene407 gene408
#> 223.9355557 180.7616549 645.1928110 755.4809831 952.6477414 403.8050219
#> gene409 gene410 gene411 gene412 gene413 gene414
#> 583.1567689 531.8931404 915.2721791 519.1250173 482.8842934 519.1794513
#> gene415 gene416 gene417 gene418 gene419 gene420
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#>
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#> gene990 2 0
#> gene991 3 1
#> gene992 2 2
#> gene993 1 1
#> gene994 1 2
#> gene995 0 2
#> gene996 1 3
#> gene997 2 2
#> gene998 1 1
#> gene999 0 0
#>
#> $metadata
#> myVariable sampleID
#> 1 myVariable1 myVariable1_1
#> 2 myVariable1 myVariable1_2
#> 3 myVariable1 myVariable1_3
#> 4 myVariable1 myVariable1_4
#> 5 myVariable2 myVariable2_1
#> 6 myVariable2 myVariable2_2
#> 7 myVariable2 myVariable2_3
#>
#> $scaling_factors
#> NULL
#>