This function creates a data.frame for each result of the diffrential expression method performed. It was created to ensure that all genes been listed, even thought the gene does not appear as diffrentially expressed, in this case NA data is inserted. This functis is executed into runExpression() function, so there is no need to call it separatelly.
Value
list with analysis expression containing: all methods executed and their results, ensuring thar all genes has been listed;
Examples
set.seed(42)
counts <- matrix(
as.integer(c(
rnbinom(200, mu = 10, size = 1),
rnbinom(200, mu = 100, size = 1)
)),
nrow = 100,
dimnames = list(
paste0("gene", seq_len(100)),
paste0("sample", seq_len(4))
)
)
groups_info <- c("control", "control", "treated", "treated")
treats <- c("control", "treated")
cons_result <- runExpression(
numberReplics = 2,
groupName = treats,
rDataFrameCount = counts,
experimentName = "test_cons",
controlDeseq2 = "control",
contrastDeseq2 = "treated",
outDirPath = tempdir(),
printResults = FALSE
)
#> calcNormFactors has been renamed to normLibSizes
#> Using classic mode.
#> baySeq libsizes
#> baySeq getPriors
#> Finding priors...
#> Warning: The '@replicates' slot is not a factor; converting now.
#> done.
#> Finding posterior likelihoods...
#> Length of priorReps:0
#> Length of priorSubset:100
#> Length of subset:100
#> Length of postRows:100
#> Analysing part 1 of 1
#> Preparing data...
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> .
#> done.
#> Estimating likelihoods...
#> ...done!
#> .
#> done.
#> Available columns in results_raw:
#> Warning: ‘>=’ not meaningful for factors
#> calcNormFactors has been renamed to normLibSizes
#> Removing intercept from test coefficients
#> [1] "Computing (M,D) values..."
#> [1] "Computing probability of differential expression..."
#> Warning: `expect_is()` was deprecated in the 3rd edition.
#> ℹ Use `expect_type()`, `expect_s3_class()`, or `expect_s4_class()` instead
#> Warning: `expect_is()` was deprecated in the 3rd edition.
#> ℹ Use `expect_type()`, `expect_s3_class()`, or `expect_s4_class()` instead
#> Warning: `expect_is()` was deprecated in the 3rd edition.
#> ℹ Use `expect_type()`, `expect_s3_class()`, or `expect_s4_class()` instead
#> Initial number of DE patterns = 2
#> Final number of DE patterns = 2
#> converting counts to integer mode
#> estimating size factors
#> estimating dispersions
#> gene-wise dispersion estimates
#> mean-dispersion relationship
#> final dispersion estimates
#> fitting model and testing
#> Estimating sequencing depths...
#> Resampling to get new data matrices...
#> perm= 1
#> perm= 2
#> perm= 3
#> perm= 4
#> perm= 5
#> perm= 6
#> perm= 7
#> perm= 8
#> perm= 9
#> perm= 10
#> perm= 11
#> perm= 12
#> perm= 13
#> perm= 14
#> perm= 15
#> perm= 16
#> perm= 17
#> perm= 18
#> perm= 19
#> perm= 20
#> perm= 21
#> perm= 22
#> perm= 23
#> perm= 24
#> Number of thresholds chosen (all possible thresholds) = 11
#> Getting all the cutoffs for the thresholds...
#> Getting number of false positives in the permutation...
#> Differential expression analysis completed.
genes_list <- results(cons_result)
framed <- frameAllGenes(cons_list = genes_list, countMatrix = counts)
#> - 1edger
#> - 2limma
#> - 3noiseq
#> - 4ebseq
#> - 5deseq2
#> - 6samseq
head(framed)
#> $edger
#> logFC logCPM PValue FDR
#> gene1 1.91851893 14.31983 0.30380003 0.9229003
#> gene10 0.35586486 12.76616 0.85978097 0.9844509
#> gene100 -0.45899561 12.50677 0.80778278 0.9844509
#> gene11 -0.47097526 12.15632 0.80640618 0.9844509
#> gene12 1.75471303 12.92653 0.37049742 0.9262436
#> gene13 -0.86464875 13.87887 0.63510838 0.9844509
#> gene14 -2.58521650 12.96298 0.18170524 0.9229003
#> gene15 1.46037191 12.58686 0.44972332 0.9844509
#> gene16 -2.44417586 13.54679 0.19918576 0.9229003
#> gene17 0.64015812 13.48271 0.73033888 0.9844509
#> gene18 7.56628308 11.79115 0.04691513 0.9229003
#> gene19 -1.32957236 12.54407 0.49706196 0.9844509
#> gene2 2.64240624 14.01498 0.16927854 0.9229003
#> gene20 1.55637643 14.96470 0.39169885 0.9553631
#> gene21 1.97303729 14.03424 0.29005233 0.9229003
#> gene22 -0.23274518 13.06343 0.91597016 0.9844509
#> gene23 -1.35847083 14.11221 0.45314954 0.9844509
#> gene24 -0.71644208 13.63902 0.69485896 0.9844509
#> gene25 -0.23666614 12.27686 0.92319277 0.9844509
#> gene26 -0.23272220 13.54688 0.90025079 0.9844509
#> gene27 0.72107649 14.04800 0.68685301 0.9844509
#> gene28 0.61905103 12.86427 0.75556632 0.9844509
#> gene29 1.81469998 13.12676 0.34490558 0.9229003
#> gene3 2.50605094 13.81737 0.19822521 0.9229003
#> gene30 1.79767352 13.43587 0.35070213 0.9229003
#> gene31 1.90006002 13.75315 0.31671228 0.9229003
#> gene32 -0.00209869 14.02423 1.00000000 1.0000000
#> gene33 4.77690337 14.20141 0.02350611 0.9229003
#> gene34 0.41689707 13.10660 0.83578463 0.9844509
#> gene35 -1.83309066 12.25116 0.34751380 0.9229003
#> gene36 -1.18497147 12.93477 0.52058700 0.9844509
#> gene37 1.25768063 12.99963 0.52352398 0.9844509
#> gene38 -2.02036434 12.92290 0.28258492 0.9229003
#> gene39 0.32328251 13.51549 0.86741633 0.9844509
#> gene4 -0.70072845 13.44741 0.70533871 0.9844509
#> gene40 1.12467085 14.12337 0.54621607 0.9844509
#> gene41 -0.40226974 13.21640 0.83739351 0.9844509
#> gene42 -0.46142628 13.69552 0.79482897 0.9844509
#> gene43 3.51944600 11.77107 0.12694342 0.9229003
#> gene44 -0.12849869 12.73884 0.96384857 0.9844509
#> gene45 2.28592110 12.94262 0.25911853 0.9229003
#> gene46 1.89928682 13.66637 0.31665615 0.9229003
#> gene47 -1.79361786 12.76514 0.33081996 0.9229003
#> gene48 4.97129015 13.13236 0.03934096 0.9229003
#> gene49 -4.15722131 14.35469 0.04016486 0.9229003
#> gene5 4.23410645 13.39541 0.05800870 0.9229003
#> gene50 1.33925366 13.54486 0.46582840 0.9844509
#> gene51 -1.34399986 12.66763 0.48086084 0.9844509
#> gene52 -0.58049348 12.97026 0.76111361 0.9844509
#> gene53 0.96476149 13.03007 0.61534683 0.9844509
#> gene54 2.17619202 13.56808 0.25761440 0.9229003
#> gene55 0.13060025 13.72693 0.94732110 0.9844509
#> gene56 3.21594681 13.18187 0.11759732 0.9229003
#> gene57 0.64552224 13.35528 0.73853360 0.9844509
#> gene58 3.94458571 13.52841 0.05975553 0.9229003
#> gene59 -0.20006465 11.77365 0.96276489 0.9844509
#> gene6 0.01444237 12.80693 1.00000000 1.0000000
#> gene60 -0.50335184 12.91123 0.81131453 0.9844509
#> gene61 -0.71319834 13.30165 0.69730347 0.9844509
#> gene62 1.04007825 14.05359 0.56636741 0.9844509
#> gene63 2.13691415 13.50166 0.26031424 0.9229003
#> gene64 0.30197834 13.21004 0.88502497 0.9844509
#> gene65 0.43247632 13.81197 0.82664017 0.9844509
#> gene66 2.63128465 13.84502 0.17945366 0.9229003
#> gene67 2.46904625 13.24518 0.20999098 0.9229003
#> gene68 0.58432157 13.32695 0.75679976 0.9844509
#> gene69 -0.86304054 12.98814 0.65259691 0.9844509
#> gene7 -1.18671619 13.55805 0.52164621 0.9844509
#> gene70 0.85970428 14.32714 0.63680589 0.9844509
#> gene71 0.39035680 12.90316 0.85648544 0.9844509
#> gene72 0.21061914 12.44094 0.95490693 0.9844509
#> gene73 3.49027342 13.29511 0.09178734 0.9229003
#> gene74 2.02193844 13.12498 0.30055195 0.9229003
#> gene75 2.22548120 14.48019 0.24099190 0.9229003
#> gene76 1.16722391 13.40312 0.53584031 0.9844509
#> gene77 -2.04221854 11.12406 0.33452799 0.9229003
#> gene78 -0.93580964 13.41966 0.60431639 0.9844509
#> gene79 2.65138043 13.17749 0.18849783 0.9229003
#> gene8 -0.60250023 13.26622 0.74802457 0.9844509
#> gene80 1.16873029 12.51736 0.53319659 0.9844509
#> gene81 -2.05365184 12.67172 0.28023894 0.9229003
#> gene82 2.94400789 13.73446 0.14259923 0.9229003
#> gene83 0.34510941 14.14968 0.85706461 0.9844509
#> gene84 0.34840351 13.35831 0.86399241 0.9844509
#> gene85 0.44497222 12.16711 0.86143205 0.9844509
#> gene86 -1.26452292 13.08689 0.49435174 0.9844509
#> gene87 0.37938253 13.91298 0.84551525 0.9844509
#> gene88 0.19086614 11.83684 0.96476187 0.9844509
#> gene89 1.23436924 13.70665 0.50429136 0.9844509
#> gene9 -0.27792138 13.52638 0.87852474 0.9844509
#> gene90 1.97726414 13.87053 0.29504986 0.9229003
#> gene91 -0.24029387 13.42545 0.90208055 0.9844509
#> gene92 0.67874780 13.10734 0.72773693 0.9844509
#> gene93 -1.67672917 13.11452 0.36222692 0.9262436
#> gene94 3.88253383 12.87727 0.06793397 0.9229003
#> gene95 0.74866318 12.37760 0.69436271 0.9844509
#> gene96 -3.49918326 13.22683 0.08108431 0.9229003
#> gene97 2.23114955 13.48341 0.25044419 0.9229003
#> gene98 -1.29268082 13.39973 0.48937572 0.9844509
#> gene99 -2.27399743 12.76408 0.22315130 0.9229003
#>
#> $limma
#> ID logFC AveExpr t P.Value adj.P.Val
#> gene1 gene1 2.743449248 12.99149 0.934429524 0.35120918 0.9722839
#> gene10 gene10 -1.517534437 10.56262 -0.419782549 0.67509490 0.9722839
#> gene100 gene100 -1.541674497 12.00503 -0.582075704 0.56117125 0.9722839
#> gene11 gene11 -1.359884890 11.78552 -0.482890021 0.62970198 0.9722839
#> gene12 gene12 1.028796327 12.60167 0.373690725 0.70903025 0.9722839
#> gene13 gene13 -3.020475443 12.94528 -1.713471658 0.08817528 0.9722839
#> gene14 gene14 -3.568694250 12.19447 -1.524565044 0.12894733 0.9722839
#> gene15 gene15 0.671044653 12.06239 0.229054534 0.81906059 0.9722839
#> gene16 gene16 -2.530035119 12.86505 -1.390706041 0.16586001 0.9722839
#> gene17 gene17 -1.868451869 11.72398 -0.663009722 0.50808773 0.9722839
#> gene18 gene18 2.537936431 10.39760 0.831174109 0.40686647 0.9722839
#> gene19 gene19 -0.477253436 11.57791 -0.155763818 0.87637629 0.9722839
#> gene2 gene2 -2.090668045 11.53230 -0.707509396 0.48007359 0.9722839
#> gene20 gene20 0.772798130 14.03996 0.397785435 0.69121261 0.9722839
#> gene21 gene21 1.307878470 13.05022 0.499875309 0.61771240 0.9722839
#> gene22 gene22 -1.026800178 12.58397 -0.437314899 0.66235483 0.9722839
#> gene23 gene23 -1.392316622 13.62571 -0.921830760 0.35772752 0.9722839
#> gene24 gene24 -1.005325308 13.38428 -0.571171081 0.56852494 0.9722839
#> gene25 gene25 -0.891496091 12.19334 -0.341644580 0.73297708 0.9722839
#> gene26 gene26 -1.076553837 13.36591 -0.629013145 0.53005823 0.9722839
#> gene27 gene27 1.842741537 13.05346 0.669340863 0.50405001 0.9722839
#> gene28 gene28 -2.889574224 11.13988 -0.875387086 0.38241340 0.9722839
#> gene29 gene29 0.934261810 12.73818 0.350554816 0.72629130 0.9722839
#> gene3 gene3 3.083646822 12.68782 1.048507597 0.29567020 0.9722839
#> gene30 gene30 1.278988648 13.04020 0.490237090 0.62450351 0.9722839
#> gene31 gene31 0.650726459 12.39535 0.236364027 0.81339210 0.9722839
#> gene32 gene32 -0.512753049 13.90203 -0.324558991 0.74585408 0.9722839
#> gene33 gene33 3.560018495 12.28595 1.210484421 0.22752166 0.9722839
#> gene34 gene34 0.611558784 12.55300 0.229469807 0.81873829 0.9722839
#> gene35 gene35 -2.784144707 11.78315 -1.003589674 0.31678910 0.9722839
#> gene36 gene36 -2.177298657 12.61114 -1.040906720 0.29917551 0.9722839
#> gene37 gene37 -1.982107890 11.62828 -0.688873591 0.49170117 0.9722839
#> gene38 gene38 -2.386274394 12.49482 -1.115625027 0.26592133 0.9722839
#> gene39 gene39 0.042910983 13.26987 0.019417418 0.98452747 0.9980659
#> gene4 gene4 -1.765867207 13.09299 -1.002974662 0.31708501 0.9722839
#> gene40 gene40 0.614170184 13.94901 0.323121786 0.74694059 0.9722839
#> gene41 gene41 0.930118016 12.21135 0.321387162 0.74825263 0.9722839
#> gene42 gene42 -0.966313347 13.51024 -0.584272589 0.55969538 0.9722839
#> gene43 gene43 2.206669160 10.99792 0.736805912 0.46210381 0.9722839
#> gene44 gene44 -0.440540553 12.47965 -0.175988060 0.86048139 0.9722839
#> gene45 gene45 0.135273235 11.59973 0.044363688 0.96465877 0.9980659
#> gene46 gene46 0.529019770 12.89823 0.212700466 0.83177724 0.9722839
#> gene47 gene47 -2.451784651 12.37593 -1.092883344 0.27575966 0.9722839
#> gene48 gene48 3.633689353 11.71159 1.235534129 0.21808110 0.9722839
#> gene49 gene49 -4.148558994 12.74570 -2.145111029 0.03314977 0.9722839
#> gene5 gene5 3.594109727 12.06029 1.222076188 0.22311717 0.9722839
#> gene50 gene50 1.779465775 12.51862 0.606092990 0.54514027 0.9722839
#> gene51 gene51 -0.493208783 11.62295 -0.162712178 0.87090934 0.9722839
#> gene52 gene52 -1.092105776 12.77848 -0.498312205 0.61881155 0.9722839
#> gene53 gene53 -0.005934635 12.73392 -0.002427050 0.99806591 0.9980659
#> gene54 gene54 1.878645755 12.97491 0.674218070 0.50095121 0.9722839
#> gene55 gene55 0.026586371 13.37857 0.012730626 0.98985539 0.9980659
#> gene56 gene56 2.582103538 11.97828 0.877971873 0.38101247 0.9722839
#> gene57 gene57 1.052779208 12.05879 0.357364563 0.72119571 0.9722839
#> gene58 gene58 2.927638952 12.51953 0.995461497 0.32071471 0.9722839
#> gene59 gene59 -0.731445374 10.81976 -0.219966143 0.82612188 0.9722839
#> gene6 gene6 -0.285978423 12.55787 -0.115187909 0.90841175 0.9767868
#> gene60 gene60 -0.436791302 12.36638 -0.169744049 0.86538300 0.9722839
#> gene61 gene61 -1.909444395 12.92270 -1.023826518 0.30715398 0.9722839
#> gene62 gene62 0.408192469 13.52139 0.188063636 0.85101744 0.9722839
#> gene63 gene63 2.555861573 12.57636 0.869049029 0.38586202 0.9722839
#> gene64 gene64 0.197408967 12.76996 0.080149993 0.93619810 0.9959554
#> gene65 gene65 0.930172335 13.07403 0.373989973 0.70880795 0.9722839
#> gene66 gene66 2.199031678 13.20207 0.801879891 0.42357417 0.9722839
#> gene67 gene67 1.726820563 12.77207 0.608805435 0.54334428 0.9722839
#> gene68 gene68 -2.977843203 11.65782 -1.024317566 0.30692263 0.9722839
#> gene69 gene69 -0.950453048 12.55911 -0.401174070 0.68872026 0.9722839
#> gene7 gene7 -2.045067678 12.82518 -1.086599748 0.27852159 0.9722839
#> gene70 gene70 0.213518191 14.21652 0.132779603 0.89450118 0.9722839
#> gene71 gene71 1.270777314 12.05958 0.432092177 0.66613991 0.9722839
#> gene72 gene72 -0.586888524 12.25420 -0.224130246 0.82288475 0.9722839
#> gene73 gene73 3.003713468 12.00780 1.021328502 0.30833264 0.9722839
#> gene74 gene74 1.030886567 12.60271 0.374449965 0.70846629 0.9722839
#> gene75 gene75 1.837205427 13.91421 0.791947336 0.42932967 0.9722839
#> gene76 gene76 0.470426176 13.23337 0.202278932 0.83990428 0.9722839
#> gene77 gene77 -3.889867348 10.05451 -0.987533364 0.32457443 0.9722839
#> gene78 gene78 -1.859339149 12.91521 -0.992638355 0.32208565 0.9722839
#> gene79 gene79 0.988803722 12.15962 0.337909281 0.73578597 0.9722839
#> gene8 gene8 0.807016134 12.21882 0.281547089 0.77858191 0.9722839
#> gene80 gene80 1.390254106 11.82627 0.471424492 0.63785147 0.9722839
#> gene81 gene81 -1.376224810 11.25557 -0.431712796 0.66641519 0.9722839
#> gene82 gene82 2.310976594 12.77812 0.787127650 0.43213891 0.9722839
#> gene83 gene83 -0.225962827 14.03656 -0.142546209 0.88679208 0.9722839
#> gene84 gene84 1.535741974 12.42079 0.524817468 0.60029133 0.9722839
#> gene85 gene85 -0.956186522 11.61794 -0.322063640 0.74774087 0.9722839
#> gene86 gene86 -2.754269863 12.22860 -1.187287135 0.23652261 0.9722839
#> gene87 gene87 1.874297939 12.83854 0.663803432 0.50758060 0.9722839
#> gene88 gene88 -1.250863066 11.04357 -0.375145655 0.70794967 0.9722839
#> gene89 gene89 1.340734612 12.44548 0.461020068 0.64528515 0.9722839
#> gene9 gene9 -1.656524882 13.03072 -0.924520881 0.35632930 0.9722839
#> gene90 gene90 1.232352516 13.49556 0.517770189 0.60519086 0.9722839
#> gene91 gene91 -0.544632212 12.88478 -0.240699288 0.81003475 0.9722839
#> gene92 gene92 -0.078048665 12.80175 -0.032500207 0.97410556 0.9980659
#> gene93 gene93 -2.064897145 12.73728 -1.043296490 0.29807041 0.9722839
#> gene94 gene94 1.854833021 11.24069 0.622322330 0.53443879 0.9722839
#> gene95 gene95 0.011542825 12.23292 0.004236625 0.99662389 0.9980659
#> gene96 gene96 -2.129072105 11.31196 -0.675424108 0.50018651 0.9722839
#> gene97 gene97 1.517263198 12.98831 0.565547289 0.57233548 0.9722839
#> gene98 gene98 -1.654731716 12.90063 -0.848124424 0.39738256 0.9722839
#> gene99 gene99 -2.636448800 12.23363 -1.132821852 0.25864529 0.9722839
#> B
#> gene1 -4.595194
#> gene10 -4.595435
#> gene100 -4.595591
#> gene11 -4.595603
#> gene12 -4.595687
#> gene13 -4.592017
#> gene14 -4.593914
#> gene15 -4.595672
#> gene16 -4.593715
#> gene17 -4.595473
#> gene18 -4.595286
#> gene19 -4.595639
#> gene2 -4.595406
#> gene20 -4.596234
#> gene21 -4.595667
#> gene22 -4.595853
#> gene23 -4.595452
#> gene24 -4.596206
#> gene25 -4.595768
#> gene26 -4.596151
#> gene27 -4.595484
#> gene28 -4.595227
#> gene29 -4.595737
#> gene3 -4.595063
#> gene30 -4.595678
#> gene31 -4.595742
#> gene32 -4.596909
#> gene33 -4.594852
#> gene34 -4.595786
#> gene35 -4.595116
#> gene36 -4.595026
#> gene37 -4.595437
#> gene38 -4.594854
#> gene39 -4.596142
#> gene4 -4.595113
#> gene40 -4.596358
#> gene41 -4.595655
#> gene42 -4.596323
#> gene43 -4.595375
#> gene44 -4.595892
#> gene45 -4.595656
#> gene46 -4.595891
#> gene47 -4.594928
#> gene48 -4.594816
#> gene49 -4.590320
#> gene5 -4.594835
#> gene50 -4.595487
#> gene51 -4.595649
#> gene52 -4.595902
#> gene53 -4.595955
#> gene54 -4.595471
#> gene55 -4.596265
#> gene56 -4.595253
#> gene57 -4.595622
#> gene58 -4.595125
#> gene59 -4.595550
#> gene6 -4.595920
#> gene60 -4.595853
#> gene61 -4.595053
#> gene62 -4.596143
#> gene63 -4.595262
#> gene64 -4.595938
#> gene65 -4.595815
#> gene66 -4.595357
#> gene67 -4.595511
#> gene68 -4.595091
#> gene69 -4.595867
#> gene7 -4.594867
#> gene70 -4.597016
#> gene71 -4.595590
#> gene72 -4.595812
#> gene73 -4.595095
#> gene74 -4.595687
#> gene75 -4.595466
#> gene76 -4.596006
#> gene77 -4.595128
#> gene78 -4.595143
#> gene79 -4.595637
#> gene8 -4.595680
#> gene80 -4.595567
#> gene81 -4.595520
#> gene82 -4.595341
#> gene83 -4.597065
#> gene84 -4.595543
#> gene85 -4.595628
#> gene86 -4.594741
#> gene87 -4.595471
#> gene88 -4.595506
#> gene89 -4.595585
#> gene9 -4.595348
#> gene90 -4.595765
#> gene91 -4.596039
#> gene92 -4.595985
#> gene93 -4.595009
#> gene94 -4.595465
#> gene95 -4.595793
#> gene96 -4.595393
#> gene97 -4.595592
#> gene98 -4.595489
#> gene99 -4.594860
#>
#> $noiseq
#> control_mean treated_mean M D prob ranking
#> gene1 8791.2088 27177.0556 -1.628255708 18385.84684 0.465 -18385.84691
#> gene10 6043.9560 6476.2345 -0.099662065 432.27849 0.010 -432.27850
#> gene100 7142.8571 3989.8231 0.840176500 3153.03408 0.160 3153.03419
#> gene11 5494.5055 2717.7056 1.015600482 2776.79993 0.160 2776.80012
#> gene12 3846.1538 9367.4107 -1.284233842 5521.25682 0.260 -5521.25697
#> gene13 21978.0220 7979.6461 1.461664877 13998.37586 0.445 13998.37593
#> gene14 15934.0659 1908.1762 3.061848115 14025.88969 0.625 14025.89002
#> gene15 3846.1538 7112.2933 -0.886898344 3266.13943 0.190 -3266.13956
#> gene16 21978.0220 3006.8232 2.869749616 18971.19880 0.665 18971.19902
#> gene17 11538.4615 10176.9400 0.181147043 1361.52156 0.050 1361.52157
#> gene18 274.7253 4452.4112 -4.018525302 4177.68597 0.320 -4177.68790
#> gene19 10989.0110 2602.0585 2.078336237 8386.95247 0.395 8386.95273
#> gene2 5494.5055 20932.1152 -1.929656553 15437.60969 0.515 -15437.60981
#> gene20 21428.5714 36370.9957 -0.763252749 14942.42429 0.215 -14942.42431
#> gene21 8791.2088 20064.7623 -1.190530614 11273.55355 0.340 -11273.55362
#> gene22 11538.4615 6534.0581 0.820399699 5004.40348 0.185 5004.40355
#> gene23 27472.5275 7863.9991 1.804654587 19608.52840 0.490 19608.52848
#> gene24 20329.6703 7748.3520 1.391625414 12581.31830 0.410 12581.31838
#> gene25 6043.9560 3469.4114 0.800802262 2574.54469 0.125 2574.54481
#> gene26 14835.1648 8384.4108 0.823239651 6450.75406 0.190 6450.75411
#> gene27 17032.9670 17231.4097 -0.016710971 198.44270 0.005 -198.44271
#> gene28 7142.8571 6418.4110 0.154285091 724.44613 0.030 724.44615
#> gene29 4395.6044 11159.9399 -1.344195798 6764.33547 0.300 -6764.33560
#> gene3 4395.6044 19602.1742 -2.156880224 15206.56977 0.545 -15206.56992
#> gene30 6043.9560 13704.1749 -1.181050391 7660.21881 0.300 -7660.21891
#> gene31 6043.9560 15959.2922 -1.400831599 9915.33620 0.375 -9915.33630
#> gene32 18681.3187 13761.9984 0.440906317 4919.32030 0.100 4919.32032
#> gene33 1648.3516 27177.0556 -4.043293207 25528.70398 0.780 -25528.70430
#> gene34 7692.3077 7632.7050 0.011222042 59.60271 0.005 59.60271
#> gene35 8791.2088 1561.2351 2.493373737 7229.97368 0.405 7229.97411
#> gene36 12637.3626 3585.0584 1.817626885 9052.30424 0.385 9052.30442
#> gene37 5494.5055 8210.9402 -0.579557786 2716.43472 0.120 -2716.43478
#> gene38 13736.2637 2428.5879 2.499800006 11307.67579 0.520 11307.67606
#> gene39 13186.8132 10466.0576 0.333377853 2720.75559 0.085 2720.75562
#> gene4 17032.9670 6418.4110 1.408041683 10614.55602 0.380 10614.55612
#> gene40 12637.3626 19891.2918 -0.654441560 7253.92914 0.155 -7253.92917
#> gene41 10989.0110 6591.8816 0.737299320 4397.12941 0.180 4397.12947
#> gene42 17032.9670 8673.5284 0.973638859 8359.43864 0.270 8359.43870
#> gene43 549.4505 4336.7642 -2.980557452 3787.31365 0.290 -3787.31482
#> gene44 8791.2088 5146.2935 0.772527808 3644.91528 0.175 3644.91536
#> gene45 2747.2527 9193.9401 -1.742693622 6446.68735 0.325 -6446.68758
#> gene46 6043.9560 17231.4097 -1.511475663 11187.45369 0.400 -11187.45380
#> gene47 12087.9121 2370.7644 2.350140853 9717.14766 0.460 9717.14795
#> gene48 549.4505 12778.9985 -4.539641321 12229.54795 0.640 -12229.54879
#> gene49 42857.1429 1734.7057 4.626772862 41122.43718 0.875 41122.43744
#> gene5 1098.9011 15381.0570 -3.807021197 14282.15592 0.660 -14282.15642
#> gene50 8791.2088 12894.6455 -0.552638661 4103.43675 0.115 -4103.43679
#> gene51 12087.9121 2948.9997 2.035267516 9138.91243 0.415 9138.91266
#> gene52 10439.5604 4914.9994 1.086797816 5524.56102 0.245 5524.56112
#> gene53 6593.4066 8153.1167 -0.306327613 1559.71009 0.065 -1559.71012
#> gene54 5494.5055 15554.5276 -1.501273029 10060.02209 0.390 -10060.02220
#> gene55 13736.2637 10986.4693 0.322261820 2749.79444 0.085 2749.79446
#> gene56 2197.8022 13588.5278 -2.628255708 11390.72562 0.540 -11390.72592
#> gene57 8241.7582 10697.3517 -0.376229626 2455.59344 0.075 -2455.59347
#> gene58 1648.3516 16826.6451 -3.351651603 15178.29343 0.655 -15178.29380
#> gene59 4395.6044 2197.2939 1.000333725 2198.31054 0.130 2198.31076
#> gene6 8791.2088 5666.7052 0.633551395 3124.50358 0.130 3124.50364
#> gene60 11538.4615 5146.2935 1.164845231 6392.16803 0.260 6392.16813
#> gene61 14285.7143 5724.5287 1.319344337 8561.18555 0.340 8561.18565
#> gene62 14285.7143 19313.0566 -0.435003335 5027.34227 0.100 -5027.34228
#> gene63 5494.5055 14744.9983 -1.424164103 9250.49277 0.365 -9250.49288
#> gene64 8791.2088 7921.8226 0.150229156 869.38619 0.030 869.38621
#> gene65 12637.3626 13704.1749 -0.116920054 1066.81222 0.025 -1066.81223
#> gene66 4395.6044 20006.9388 -2.186366989 15611.33443 0.555 -15611.33458
#> gene67 3296.7033 12778.9985 -1.954678820 9482.29520 0.410 -9482.29540
#> gene68 9890.1099 10466.0576 -0.081659647 575.94770 0.010 -575.94771
#> gene69 10989.0110 4683.7053 1.230339331 6305.30566 0.270 6305.30578
#> gene7 18131.8681 6302.7640 1.524471033 11829.10417 0.415 11829.10427
#> gene70 17582.4176 21857.2915 -0.313981185 4274.87396 0.085 -4274.87398
#> gene71 6593.4066 6823.1757 -0.049419310 229.76907 0.010 -229.76908
#> gene72 5494.5055 4336.7642 0.341370643 1157.74130 0.060 1157.74135
#> gene73 1648.3516 14860.6453 -3.172400810 13212.29366 0.600 -13212.29404
#> gene74 3846.1538 11564.7045 -1.588240029 7718.55068 0.355 -7718.55084
#> gene75 8791.2088 29605.6436 -1.751738761 20814.43478 0.490 -20814.43486
#> gene76 7692.3077 12027.2927 -0.644823557 4334.98501 0.145 -4334.98506
#> gene77 3846.1538 636.0587 2.596184542 3210.09510 0.235 3210.09615
#> gene78 18131.8681 6360.5875 1.511295645 11771.28064 0.410 11771.28074
#> gene79 2747.2527 13125.9396 -2.256359154 10378.68688 0.470 -10378.68713
#> gene8 12087.9121 6129.2934 0.979772403 5958.61869 0.235 5958.61877
#> gene80 4395.6044 6244.9404 -0.506626263 1849.33605 0.075 -1849.33612
#> gene81 13736.2637 2081.6468 2.722192427 11654.61692 0.545 11654.61724
#> gene82 3296.7033 19833.4683 -2.588841027 16536.76496 0.605 -16536.76516
#> gene83 18131.8681 15959.2922 0.184130901 2172.57589 0.050 2172.57590
#> gene84 9340.6593 9367.4107 -0.004125923 26.75132 0.000 -26.75132
#> gene85 4395.6044 4163.2936 0.078336237 232.31077 0.010 232.31078
#> gene86 15384.6154 4336.7642 1.826797470 11047.85119 0.425 11047.85134
#> gene87 13736.2637 14224.5866 -0.050397077 488.32283 0.010 -488.32283
#> gene88 3296.7033 2602.0585 0.341370643 694.64478 0.040 694.64486
#> gene89 10439.5604 15843.6452 -0.601843331 5404.08476 0.145 -5404.08479
#> gene9 14835.1648 9078.2930 0.708527992 5756.87179 0.170 5756.87183
#> gene90 7142.8571 18445.7037 -1.368711657 11302.84657 0.395 -11302.84665
#> gene91 15384.6154 7632.7050 1.011222042 7751.91040 0.270 7751.91047
#> gene92 8241.7582 8846.9990 -0.102236008 605.24072 0.015 -605.24073
#> gene93 14835.1648 3295.9408 2.170258727 11539.22405 0.490 11539.22425
#> gene94 1098.9011 9887.8224 -3.169591276 8788.92127 0.470 -8788.92184
#> gene95 4395.6044 5088.4700 -0.211170380 692.86559 0.030 -692.86563
#> gene96 23626.3736 1214.2940 4.282208571 22412.07965 0.785 22412.08006
#> gene97 4395.6044 15207.5864 -1.790657750 10811.98205 0.420 -10811.98220
#> gene98 19780.2198 5204.1170 1.926333144 14576.10275 0.505 14576.10287
#> gene99 12637.3626 1908.1762 2.727429076 10729.18639 0.520 10729.18674
#>
#> $ebseq
#> DEFound
#> gene1 EE
#> gene10 EE
#> gene100 EE
#> gene11 EE
#> gene12 EE
#> gene13 EE
#> gene14 DE
#> gene15 EE
#> gene16 DE
#> gene17 EE
#> gene18 EE
#> gene19 EE
#> gene2 EE
#> gene20 EE
#> gene21 EE
#> gene22 EE
#> gene23 EE
#> gene24 EE
#> gene25 EE
#> gene26 EE
#> gene27 EE
#> gene28 EE
#> gene29 EE
#> gene3 DE
#> gene30 EE
#> gene31 EE
#> gene32 EE
#> gene33 EE
#> gene34 EE
#> gene35 DE
#> gene36 EE
#> gene37 EE
#> gene38 DE
#> gene39 EE
#> gene4 EE
#> gene40 EE
#> gene41 EE
#> gene42 EE
#> gene43 EE
#> gene44 EE
#> gene45 EE
#> gene46 EE
#> gene47 DE
#> gene48 EE
#> gene49 DE
#> gene5 EE
#> gene50 EE
#> gene51 EE
#> gene52 EE
#> gene53 EE
#> gene54 EE
#> gene55 EE
#> gene56 EE
#> gene57 EE
#> gene58 EE
#> gene59 EE
#> gene6 EE
#> gene60 EE
#> gene61 EE
#> gene62 EE
#> gene63 EE
#> gene64 EE
#> gene65 EE
#> gene66 DE
#> gene67 EE
#> gene68 EE
#> gene69 EE
#> gene7 EE
#> gene70 EE
#> gene71 EE
#> gene72 EE
#> gene73 EE
#> gene74 EE
#> gene75 EE
#> gene76 EE
#> gene77 EE
#> gene78 EE
#> gene79 EE
#> gene8 EE
#> gene80 EE
#> gene81 EE
#> gene82 EE
#> gene83 EE
#> gene84 EE
#> gene85 EE
#> gene86 EE
#> gene87 EE
#> gene88 EE
#> gene89 EE
#> gene9 EE
#> gene90 EE
#> gene91 EE
#> gene92 EE
#> gene93 DE
#> gene94 EE
#> gene95 EE
#> gene96 DE
#> gene97 EE
#> gene98 EE
#> gene99 DE
#>
#> $deseq2
#> baseMean log2FoldChange lfcSE stat pvalue padj
#> gene1 46.759801 1.490934434 1.5690041 0.950242532 0.3419890318 0.69004757
#> gene10 16.142876 -0.144192139 2.4584107 -0.058652584 0.9532288264 0.99863514
#> gene100 14.272479 -0.932048099 1.4858920 -0.627265053 0.5304855073 0.86964837
#> gene11 11.495617 -0.761858274 1.4832821 -0.513630067 0.6075106541 0.88045022
#> gene12 17.430391 1.359643241 1.2263517 1.108689464 0.2675641686 0.63705754
#> gene13 41.590296 -1.121355868 1.5366610 -0.729735380 0.4655519502 0.83983990
#> gene14 22.347439 -3.063946039 1.1829948 -2.589991172 0.0095978393 0.17994440
#> gene15 13.375534 0.985013283 1.4854637 0.663101569 0.5072655057 0.84544251
#> gene16 33.808828 -2.819060805 1.2075702 -2.334490211 0.0195700681 0.23374500
#> gene17 29.805717 0.363468615 2.0085143 0.180963916 0.8563958992 0.99863514
#> gene18 7.039212 4.794583505 2.0017671 2.395175473 0.0166124129 0.23374500
#> gene19 15.944525 -1.726483546 1.7309529 -0.997417973 0.3185616707 0.67926078
#> gene2 41.241057 2.387763397 2.0713792 1.152740828 0.2490167781 0.62983345
#> gene20 82.608659 1.256649302 1.7696463 0.710113249 0.4776339108 0.83983990
#> gene21 41.906903 1.667739136 1.4806306 1.126370849 0.2600085805 0.63416727
#> gene22 21.376864 -0.732009554 1.3304843 -0.550182764 0.5821940246 0.88045022
#> gene23 49.002782 -1.677843740 1.1905053 -1.409354265 0.1587304403 0.55736189
#> gene24 34.227090 -1.123930225 1.1902441 -0.944285479 0.3450237843 0.69004757
#> gene25 12.092691 -0.646650093 1.2369034 -0.522797579 0.6011151242 0.88045022
#> gene26 31.679936 -0.539363775 1.2193886 -0.442323123 0.6582554009 0.88831195
#> gene27 42.171391 0.285437170 1.5587707 0.183116841 0.8547063422 0.99863514
#> gene28 18.888521 0.352150489 2.0826868 0.169084705 0.8657300157 0.99863514
#> gene29 19.907372 1.384509030 1.1914234 1.162063024 0.2452098655 0.62983345
#> gene3 32.961919 2.145488464 1.5329364 1.399593947 0.1616349477 0.55736189
#> gene30 25.570843 1.371398649 1.1683967 1.173744073 0.2404975512 0.62983345
#> gene31 34.428100 1.659503607 1.7321213 0.958075862 0.3380245061 0.69004757
#> gene32 42.551030 -0.409782770 0.9986571 -0.410333789 0.6815611092 0.88831195
#> gene33 45.383617 4.498825403 1.6485204 2.729008036 0.0063525156 0.17994440
#> gene34 22.057970 0.114090962 1.3895690 0.082105285 0.9345629909 0.99863514
#> gene35 13.166245 -2.167086344 1.3790259 -1.571461722 0.1160754389 0.49713309
#> gene36 21.248679 -1.498497252 1.2055714 -1.242976783 0.2138763889 0.62983345
#> gene37 20.320508 1.001347925 1.8094367 0.553403137 0.5799873916 0.88045022
#> gene38 21.445704 -2.392981279 1.0807475 -2.214190878 0.0268156511 0.26815651
#> gene39 29.387053 -0.102111124 1.2448214 -0.082028735 0.9346238634 0.99863514
#> gene4 30.334511 -1.010896314 1.3376501 -0.755725526 0.4498137767 0.83983990
#> gene40 43.384317 0.739493152 0.9596633 0.770575607 0.4409585243 0.83983990
#> gene41 24.366690 -0.784853683 1.6398110 -0.478624470 0.6322058069 0.88831195
#> gene42 35.326083 -0.778904860 1.1595874 -0.671708643 0.5017691981 0.84544251
#> gene43 6.715599 3.166738701 1.7216649 1.839346681 0.0658642111 0.38026279
#> gene44 16.991764 -0.567252267 1.3073858 -0.433882854 0.6643735109 0.88831195
#> gene45 18.783555 2.048974783 1.7884574 1.145665991 0.2519333808 0.62983345
#> gene46 28.781572 1.425786044 1.4315193 0.995995016 0.3192525666 0.67926078
#> gene47 19.115454 -2.126586457 1.1918245 -1.784311699 0.0743730302 0.38026279
#> gene48 20.080762 4.787228094 1.8593895 2.574623646 0.0100349212 0.17994440
#> gene49 61.339544 -4.474585636 1.3586095 -3.293503889 0.0009894697 0.09894697
#> gene5 24.362800 3.983785846 1.5627519 2.549212021 0.0107966639 0.17994440
#> gene50 29.711687 1.011814411 1.7102082 0.591632299 0.5540968407 0.88045022
#> gene51 17.300041 -1.808074106 1.7202151 -1.051074435 0.2932244044 0.66641910
#> gene52 20.998896 -0.905452488 1.1499411 -0.787390334 0.4310534035 0.83983990
#> gene53 20.620828 0.653070240 1.2627839 0.517167048 0.6050395527 0.88045022
#> gene54 28.300499 1.782689581 1.3001014 1.371192716 0.1703148884 0.56771629
#> gene55 35.076912 -0.178516599 1.2939410 -0.137963480 0.8902692801 0.99863514
#> gene56 19.458190 2.739250998 1.5645229 1.750853866 0.0799710853 0.38081469
#> gene57 24.626426 0.182369833 1.7722090 0.102905375 0.9180380714 0.99863514
#> gene58 26.983642 3.625938250 1.4116846 2.568518738 0.0102134190 0.17994440
#> gene59 8.413024 -0.506185787 1.7645655 -0.286861435 0.7742184203 0.96777303
#> gene6 17.743055 -0.418994267 1.2840041 -0.326318479 0.7441834086 0.94200431
#> gene60 19.690572 -0.968198214 1.4071833 -0.688039862 0.4914276796 0.84544251
#> gene61 27.244516 -0.999381682 1.3459015 -0.742537002 0.4577620417 0.83983990
#> gene62 40.518705 0.550303306 1.2805232 0.429748810 0.6673783733 0.88831195
#> gene63 27.018280 1.744077669 1.5046946 1.159090782 0.2464191829 0.62983345
#> gene64 24.003083 0.004198939 1.3407197 0.003131854 0.9975011459 0.99863514
#> gene65 35.296465 0.016635461 1.4824723 0.011221431 0.9910467813 0.99863514
#> gene66 33.939843 2.289698261 1.1993682 1.909086968 0.0562508736 0.38026279
#> gene67 21.836046 2.099089926 1.1220444 1.870772536 0.0613766158 0.38026279
#> gene68 24.148584 0.062186595 1.9290992 0.032236080 0.9742837837 0.99863514
#> gene69 21.106216 -1.271311259 1.2608571 -1.008291338 0.3133146201 0.67926078
#> gene7 32.032588 -1.661266111 1.4437923 -1.150626817 0.2498857958 0.62983345
#> gene70 50.682206 0.438613862 0.9115113 0.481194104 0.6303785507 0.88831195
#> gene71 18.508518 0.011682632 1.6383545 0.007130711 0.9943105643 0.99863514
#> gene72 13.655211 -0.101208839 1.3527064 -0.074819517 0.9403583132 0.99863514
#> gene73 21.165181 3.100341012 1.5214914 2.037698708 0.0415800735 0.34650061
#> gene74 19.526257 1.583463381 1.2767883 1.240192632 0.2149041529 0.62983345
#> gene75 55.275438 1.910883650 1.1205486 1.705310891 0.0881364574 0.40062026
#> gene76 25.580243 0.753024397 1.0630219 0.708380912 0.4787087431 0.83983990
#> gene77 5.350468 -2.574265432 1.3425401 -1.917458880 0.0551796601 0.38026279
#> gene78 28.961531 -1.434711552 1.3611469 -1.054046043 0.2918618375 0.66641910
#> gene79 19.405465 2.181615606 1.5235751 1.431905566 0.1521708491 0.55736189
#> gene8 25.835469 -0.938015507 1.6984836 -0.552266450 0.5807658130 0.88045022
#> gene80 13.158742 0.727722169 1.6333852 0.445530030 0.6559367628 0.88831195
#> gene81 17.861884 -2.561708651 1.8070273 -1.417636913 0.1562967975 0.55736189
#> gene82 29.654513 2.528586615 1.3991584 1.807219669 0.0707280353 0.38026279
#> gene83 47.040830 0.018917205 1.0102684 0.018724930 0.9850605407 0.99863514
#> gene84 25.980455 -0.020903974 1.6441814 -0.012713910 0.9898560410 0.99863514
#> gene85 10.258370 -0.054293480 1.5391337 -0.035275349 0.9718601794 0.99863514
#> gene86 23.110890 -1.785726566 1.4616643 -1.221707752 0.2218181639 0.62983345
#> gene87 38.499691 -0.002821424 1.6493784 -0.001710598 0.9986351409 0.99863514
#> gene88 8.701260 -0.064652223 1.6789707 -0.038507060 0.9692834028 0.99863514
#> gene89 30.949045 0.725647226 1.7828706 0.407010599 0.6840002038 0.88831195
#> gene9 29.746432 -0.767752162 1.3875108 -0.553330604 0.5800370487 0.88045022
#> gene90 36.145914 1.640344599 1.1241950 1.459128219 0.1445298207 0.55736189
#> gene91 29.262043 -0.570527240 1.4775495 -0.386130710 0.6993998666 0.89666650
#> gene92 20.880034 0.205728924 1.2147327 0.169361483 0.8655123182 0.99863514
#> gene93 24.400279 -2.016734642 1.1367880 -1.774064040 0.0760525580 0.38026279
#> gene94 17.312246 3.644704772 1.9871413 1.834144764 0.0666325081 0.38026279
#> gene95 12.144769 0.328765740 1.2792238 0.257004089 0.7971756168 0.98416743
#> gene96 28.025703 -3.907765140 1.7969946 -2.174611486 0.0296592429 0.26962948
#> gene97 25.641088 1.827454209 1.1731987 1.557668123 0.1193119407 0.49713309
#> gene98 29.325298 -1.764820770 1.3238347 -1.333112671 0.1824948316 0.58869301
#> gene99 19.227835 -2.676404002 1.1599628 -2.307318870 0.0210370503 0.23374500
#>
#> $samseq
#> Gene ID Gene Name Score(d) Fold Change q-value(%)
#> gene1 <NA> <NA> <NA> <NA> <NA>
#> gene10 <NA> <NA> <NA> <NA> <NA>
#> gene100 <NA> <NA> <NA> <NA> <NA>
#> gene11 <NA> <NA> <NA> <NA> <NA>
#> gene12 gene12 gene12 1.95 2.883 64.286
#> gene13 <NA> <NA> <NA> <NA> <NA>
#> gene14 <NA> <NA> <NA> <NA> <NA>
#> gene15 <NA> <NA> <NA> <NA> <NA>
#> gene16 <NA> <NA> <NA> <NA> <NA>
#> gene17 <NA> <NA> <NA> <NA> <NA>
#> gene18 gene18 gene18 2 2331119974.565 64.286
#> gene19 <NA> <NA> <NA> <NA> <NA>
#> gene2 <NA> <NA> <NA> <NA> <NA>
#> gene20 <NA> <NA> <NA> <NA> <NA>
#> gene21 <NA> <NA> <NA> <NA> <NA>
#> gene22 <NA> <NA> <NA> <NA> <NA>
#> gene23 <NA> <NA> <NA> <NA> <NA>
#> gene24 <NA> <NA> <NA> <NA> <NA>
#> gene25 <NA> <NA> <NA> <NA> <NA>
#> gene26 <NA> <NA> <NA> <NA> <NA>
#> gene27 <NA> <NA> <NA> <NA> <NA>
#> gene28 <NA> <NA> <NA> <NA> <NA>
#> gene29 gene29 gene29 1.8 2.973 64.286
#> gene3 gene3 gene3 2 5.088 64.286
#> gene30 gene30 gene30 2 2.831 64.286
#> gene31 <NA> <NA> <NA> <NA> <NA>
#> gene32 <NA> <NA> <NA> <NA> <NA>
#> gene33 gene33 gene33 1.95 23.148 64.286
#> gene34 <NA> <NA> <NA> <NA> <NA>
#> gene35 <NA> <NA> <NA> <NA> <NA>
#> gene36 <NA> <NA> <NA> <NA> <NA>
#> gene37 <NA> <NA> <NA> <NA> <NA>
#> gene38 <NA> <NA> <NA> <NA> <NA>
#> gene39 <NA> <NA> <NA> <NA> <NA>
#> gene4 <NA> <NA> <NA> <NA> <NA>
#> gene40 gene40 gene40 1.75 1.874 64.286
#> gene41 <NA> <NA> <NA> <NA> <NA>
#> gene42 <NA> <NA> <NA> <NA> <NA>
#> gene43 gene43 gene43 2 10.301 64.286
#> gene44 <NA> <NA> <NA> <NA> <NA>
#> gene45 <NA> <NA> <NA> <NA> <NA>
#> gene46 <NA> <NA> <NA> <NA> <NA>
#> gene47 <NA> <NA> <NA> <NA> <NA>
#> gene48 gene48 gene48 2 28.057 64.286
#> gene49 <NA> <NA> <NA> <NA> <NA>
#> gene5 gene5 gene5 2 16.712 64.286
#> gene50 <NA> <NA> <NA> <NA> <NA>
#> gene51 <NA> <NA> <NA> <NA> <NA>
#> gene52 <NA> <NA> <NA> <NA> <NA>
#> gene53 <NA> <NA> <NA> <NA> <NA>
#> gene54 gene54 gene54 2 3.661 64.286
#> gene55 <NA> <NA> <NA> <NA> <NA>
#> gene56 gene56 gene56 1.8 7.582 64.286
#> gene57 <NA> <NA> <NA> <NA> <NA>
#> gene58 gene58 gene58 2 13.174 64.286
#> gene59 <NA> <NA> <NA> <NA> <NA>
#> gene6 <NA> <NA> <NA> <NA> <NA>
#> gene60 <NA> <NA> <NA> <NA> <NA>
#> gene61 <NA> <NA> <NA> <NA> <NA>
#> gene62 <NA> <NA> <NA> <NA> <NA>
#> gene63 gene63 gene63 2 3.517 64.286
#> gene64 <NA> <NA> <NA> <NA> <NA>
#> gene65 <NA> <NA> <NA> <NA> <NA>
#> gene66 gene66 gene66 2 5.421 64.286
#> gene67 gene67 gene67 2 4.717 64.286
#> gene68 <NA> <NA> <NA> <NA> <NA>
#> gene69 <NA> <NA> <NA> <NA> <NA>
#> gene7 <NA> <NA> <NA> <NA> <NA>
#> gene70 <NA> <NA> <NA> <NA> <NA>
#> gene71 <NA> <NA> <NA> <NA> <NA>
#> gene72 <NA> <NA> <NA> <NA> <NA>
#> gene73 gene73 gene73 2 9.889 64.286
#> gene74 <NA> <NA> <NA> <NA> <NA>
#> gene75 gene75 gene75 2 4.117 64.286
#> gene76 <NA> <NA> <NA> <NA> <NA>
#> gene77 <NA> <NA> <NA> <NA> <NA>
#> gene78 <NA> <NA> <NA> <NA> <NA>
#> gene79 <NA> <NA> <NA> <NA> <NA>
#> gene8 <NA> <NA> <NA> <NA> <NA>
#> gene80 <NA> <NA> <NA> <NA> <NA>
#> gene81 <NA> <NA> <NA> <NA> <NA>
#> gene82 gene82 gene82 1.9 6.728 64.286
#> gene83 <NA> <NA> <NA> <NA> <NA>
#> gene84 <NA> <NA> <NA> <NA> <NA>
#> gene85 <NA> <NA> <NA> <NA> <NA>
#> gene86 <NA> <NA> <NA> <NA> <NA>
#> gene87 <NA> <NA> <NA> <NA> <NA>
#> gene88 <NA> <NA> <NA> <NA> <NA>
#> gene89 <NA> <NA> <NA> <NA> <NA>
#> gene9 <NA> <NA> <NA> <NA> <NA>
#> gene90 gene90 gene90 2 3.312 64.286
#> gene91 <NA> <NA> <NA> <NA> <NA>
#> gene92 <NA> <NA> <NA> <NA> <NA>
#> gene93 <NA> <NA> <NA> <NA> <NA>
#> gene94 <NA> <NA> <NA> <NA> <NA>
#> gene95 <NA> <NA> <NA> <NA> <NA>
#> gene96 <NA> <NA> <NA> <NA> <NA>
#> gene97 gene97 gene97 2 4.031 64.286
#> gene98 <NA> <NA> <NA> <NA> <NA>
#> gene99 <NA> <NA> <NA> <NA> <NA>
#>