User: JasonLouisStein

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Posts by JasonLouisStein

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TFBSTools access to JASPAR2014 via getMatrixSet()
... Hello, When accessing JASPAR2014 database using TFBSTools using the getMatrixSet() function, I see that one needs to set the options of which PWMs to retrieve.  For example opts[["all_versions"]] <- TRUE siteList2 <- getMatrixSet(JASPAR2014, opts) I'm not sure what the option all_versions  ...
tfbstools jaspar written 4.2 years ago by JasonLouisStein0 • updated 4.2 years ago by Ge Tan20
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DiffBind: Normalization for DESeq2
... Hi, I'm trying to understand the normalization for DESeq2 analysis within DiffBind.  If I run: Pool1 = dba.analyze(Pool1,method=DBA_DESEQ2,bFullLibrarySize=FALSE,bCorPlot=FALSE);  Pool1.DB = dba.report(Pool1,file="test",method=DBA_DESEQ2,th=1,bCounts=TRUE);   Then, the normalized counts contained ...
diffbind deseq2 written 4.5 years ago by JasonLouisStein0 • updated 4.5 years ago by Rory Stark3.0k

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Popular Question 4.2 years ago, created a question with more than 1,000 views. For DiffBind: Normalization for DESeq2

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