User: linw

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linw0
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Posts by linw

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A problem in using Combat
... Hi everyone: I have a problem in using combat function of sva package. My expression matrix like this,the row is gene ID, the col is sample name; Gene ID FPKM_SRR1747143 FPKM_SRR1747144 FPKM_SRR1747145 ENSG00000227232.5_2 16.9862 21.125874 10.934044 EN ...
sva combat written 15 months ago by linw0 • updated 15 months ago by W. Evan Johnson800
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Comment: C: A DESeq2 problem in dealing with case-control study
... Thanks for your reply!  I plot my data ,and here is my code and picture. vsd <- vst(dds, blind=FALSE);plotPCA(vsd,intgroup=c("condition")) I still confuse about the result . If the padj in res is the same value ,it means there is no DEGs in my data. Am I right? Here is part of my res, and ...
written 16 months ago by linw0
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A DESeq2 problem in dealing with case-control study
... Hi everyone: I have a problem with the result of DESeq2 . When I dealt with case-control research, I used following commands . case=8 , control num=8. I just want the DEGs in case and control.  > library("DESeq2") > countData <- read.table('featureCounts.txt', header=TRUE, row.names=1) & ...
deseq2 written 16 months ago by linw0 • updated 16 months ago by swbarnes2330

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