How to use the download results of Corrections-EB of RNA-seq? #8
Description
I download the results archive (with Adjusted-EB_withPar FPKM) from the website "https://bioinformatics.mdanderson.org/MQA/" of TCGA-LUSC.
I wonder how to use the file "ANY_Corrections-EBwithParametricPriors.tsv".
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PLA2G2A|ENSG00000188257.12 -53.1680004771167 -65.3335897806386 -129.162777412761 -89.7836048383738
REG3A|ENSG00000172016.16 -10.3719820825841 -7.84574911962045 -151.929112985855 68.9747044464407
S100A7|ENSG00000143556.9 -13.7109965750891 -21.4753301501633 17.1837681357217 78.5864264730187
S100A8|ENSG00000143546.10 -10.6843375109053 -14.5984854006873 66.5600406838153 125.048066344643
S100A9|ENSG00000163220.11 -31.2751910332082 -58.7273416415841 140.296566128353 354.986397754127
SCGB3A1|ENSG00000161055.4 -10.2636709877373 -13.6434801372338 0.52054533169026 2.93944785876412
SLC7A2|ENSG00000003989.18 -12.684669392882 -7.69896316782446 1.90745609053613 -2.87301695114919
SPINK4|ENSG00000122711.9 -70.0140042750841 -67.5681442661751 3.79100099972419 24.4314443996503
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For further analysis, how to deal with the negative value in the corrected matrix ?
Set those negative value to 0 ?