Simplifies the access to the differential expression results table
get.results(DEprot.analyses.object, contrast = 1)A data frame.
get.results(DEprot.analyses.object = DEprot::test.toolbox$diff.exp.limma,
contrast = 1)
#> prot.id basemean.log2 log2.mean.FBS log2.mean.6h.DMSO
#> 1 protein.1 18.54165 18.26954 18.81376
#> 2 protein.2 22.76659 22.43601 23.09716
#> 3 protein.3 16.20940 16.57051 15.84830
#> 4 protein.4 21.19592 21.16429 21.22754
#> 5 protein.5 19.30638 19.18238 19.43038
#> 6 protein.6 15.49009 15.63217 15.34802
#> 7 protein.7 17.00778 17.02135 16.99422
#> 8 protein.8 12.22225 12.77121 11.67328
#> 9 protein.9 11.79314 12.15845 11.42784
#> 10 protein.10 12.84557 13.11600 12.57513
#> 11 protein.11 14.21366 14.25200 14.17533
#> 12 protein.12 14.18435 14.40897 13.95974
#> 13 protein.14 18.17955 18.29240 18.06671
#> 14 protein.15 15.15596 15.29837 15.01355
#> 15 protein.16 16.30529 16.39731 16.21326
#> 16 protein.17 13.42816 14.22905 12.62727
#> 17 protein.18 17.70510 17.48411 17.92609
#> 18 protein.19 15.97148 15.95095 15.99202
#> 19 protein.20 19.39488 19.48232 19.30743
#> 20 protein.21 18.47346 18.47229 18.47463
#> 21 protein.22 16.49923 16.49822 16.50023
#> 22 protein.23 15.42045 15.55763 15.28327
#> 23 protein.24 14.96077 15.07249 14.84904
#> 24 protein.25 18.93194 18.66327 19.20061
#> 25 protein.26 17.11203 16.46284 17.76121
#> 26 protein.27 17.49123 17.68725 17.29522
#> 27 protein.28 11.30990 11.14631 11.47349
#> 28 protein.29 16.36207 16.73584 15.98829
#> 29 protein.30 17.36296 17.05715 17.66877
#> 30 protein.31 12.95736 13.29412 12.62060
#> 31 protein.32 13.33568 13.13449 13.53687
#> 32 protein.33 15.43228 15.42325 15.44131
#> 33 protein.34 13.36773 13.34418 13.39128
#> 34 protein.35 14.28607 14.63020 13.94194
#> 35 protein.36 16.00716 16.04804 15.96629
#> 36 protein.37 19.58236 19.50252 19.66220
#> 37 protein.38 16.53489 16.62487 16.44492
#> 38 protein.39 17.04712 17.27062 16.82361
#> 39 protein.40 16.23806 16.25504 16.22108
#> 40 protein.41 16.32023 16.18395 16.45652
#> 41 protein.42 15.59224 15.31647 15.86801
#> 42 protein.43 16.78640 16.57529 16.99751
#> 43 protein.44 14.04758 13.30699 14.78817
#> 44 protein.45 15.86849 16.18885 15.54814
#> 45 protein.46 15.08760 14.95140 15.22380
#> 46 protein.47 12.49232 12.40296 12.58168
#> 47 protein.48 17.49097 18.35534 16.62660
#> 48 protein.49 17.19600 17.46597 16.92602
#> 49 protein.50 15.78207 15.89672 15.66742
#> 50 protein.51 15.32077 15.76659 14.87495
#> log2.Fold_FBS.vs.6h.DMSO p.value padj diff.status
#> 1 -0.544224676 4.313645e-02 0.154058733 null
#> 2 -0.661148700 7.684945e-04 0.012808242 null
#> 3 0.722211468 6.089996e-03 0.038062473 null
#> 4 -0.063254105 6.383918e-01 0.778526584 unresponsive
#> 5 -0.247994864 1.779000e-01 0.317678633 null
#> 6 0.284145196 1.885915e-01 0.325157737 null
#> 7 0.027126811 9.252942e-01 0.963848144 unresponsive
#> 8 1.097929751 7.058515e-02 0.185750402 null
#> 9 0.730609437 4.476198e-03 0.036679827 null
#> 10 0.540865019 7.747635e-02 0.193690868 null
#> 11 0.076674081 8.761545e-01 0.963848144 unresponsive
#> 12 0.449233938 2.470489e-01 0.374316461 null
#> 13 0.225695196 1.329680e-01 0.277016600 null
#> 14 0.284825720 2.036061e-01 0.328397012 null
#> 15 0.184057322 3.691331e-01 0.512684801 null
#> 16 1.601773496 1.178507e-04 0.002946268 FBS
#> 17 -0.441985756 6.642049e-02 0.184501368 null
#> 18 -0.041072472 8.099564e-01 0.954821814 unresponsive
#> 19 0.174882092 1.701493e-01 0.315091349 null
#> 20 -0.002342062 9.897719e-01 0.989990662 unresponsive
#> 21 -0.002006187 9.899907e-01 0.989990662 unresponsive
#> 22 0.274353614 2.034179e-01 0.328397012 null
#> 23 0.223451682 4.815671e-01 0.617393749 null
#> 24 -0.537343331 5.544103e-02 0.166184226 null
#> 25 -1.298375673 1.380030e-03 0.017250378 6h.DMSO
#> 26 0.392025553 2.032552e-02 0.092388714 null
#> 27 -0.327178247 1.294868e-01 0.277016600 null
#> 28 0.747543162 1.741187e-02 0.087059335 null
#> 29 -0.611619251 5.135176e-03 0.036679827 null
#> 30 0.673519251 1.292471e-01 0.277016600 null
#> 31 -0.402377887 1.682905e-01 0.315091349 null
#> 32 -0.018062115 9.245091e-01 0.963848144 unresponsive
#> 33 -0.047096006 8.946976e-01 0.963848144 unresponsive
#> 34 0.688263451 3.448549e-02 0.132636510 null
#> 35 0.081753522 8.211468e-01 0.954821814 unresponsive
#> 36 -0.159672887 2.951002e-01 0.421571714 null
#> 37 0.179953720 4.225235e-01 0.555952031 null
#> 38 0.447016255 3.012137e-02 0.125505722 null
#> 39 0.033956247 8.591371e-01 0.963848144 unresponsive
#> 40 -0.272567788 1.258389e-01 0.277016600 null
#> 41 -0.551538280 5.650264e-02 0.166184226 null
#> 42 -0.422217281 2.112159e-01 0.330024914 null
#> 43 -1.481179691 1.990916e-03 0.019909160 6h.DMSO
#> 44 0.640712512 4.032313e-01 0.544907215 null
#> 45 -0.272402734 2.648102e-01 0.389426763 null
#> 46 -0.178725560 5.348115e-01 0.668514433 null
#> 47 1.728739897 7.441234e-05 0.002946268 FBS
#> 48 0.539953527 5.116272e-02 0.166184226 null
#> 49 0.229293759 1.609343e-01 0.315091349 null
#> 50 0.891645555 1.533297e-02 0.085183180 null