Bioconductor CuratedCRCdata

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MultiAssayExperiment curatedCRCdata multiomics TCGA

updated 5.5 years ago by Marcel Ramos 680 • written 5.5 years ago by svlachavas ▴ 820

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Answer: Filter genes by expression for voomLmFit by Gordon Smyth 49k

There are several reasons why low-count genes are filtered: - The dispersion of low-counts genes is hard to estimate and misestimation may…

Answer: WGCNA documentation not available by James W. MacDonald 64k

Although people sometimes ask questions about WGCNA on this support site, it's not a Bioconductor package and therefore off-topic. Peter La…

Comment: ATACseqQC shiftGAlignmentsList() problem by Ou, Jianhong ★ 1.3k

try: `gal1 <- shiftGAlignmentsList(gal, outbam='3-AL1_Tn5_shift.bam')`. I will try to figure out why the memory is so high.

Comment: ATACseqQC shiftGAlignmentsList() problem by jfmay • 0

Thanks for your response. The version of ATACseqQC I'm using is 1.26.0. I tried to set bigFile=TRUE. The resulting object *gal1* still ends…

Answer: biomaRt_getBM_Failed to collect lazy table by James W. MacDonald 64k

That's an old bug that you should be able to fix by updating. I can't remember what package, although `db_collect` comes from `dbplyr` (and…

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Comment: Ensembl down???

Comment: Ensembl down???

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