Biostar Msigdb

Showing : msigdb • reset

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gseabase msigdb genesetcollection Tutorial

3.1 years ago t.kuilman 170

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clusterprofiler GSEA MSIGDB

updated 3.4 years ago by Guangchuang Yu ★ 1.2k • written 3.4 years ago by thomasjenner333 • 0

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limma romer msigdb

updated 5.9 years ago by James W. MacDonald 57k • written 5.9 years ago by Jon Manning ▴ 40

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category gostats msigdb hypergeometric test

6.0 years ago petyuk ▴ 70

4 results • Page 1 of 1

Recent ...

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Comment: DESeq2 question: why I got discrepancy results for DEGs when using different way by Ming ▴ 350

Thx for the advice about the reference levels, in which I did do as you suggested! In fact, I even tried more options just want to see why…

Answer: Time series DE gene analysis with edgeR where specific timepoints have NA levels by Gordon Smyth 43k

> is there a way to incorporate also the information of the additional samples that lack any of the aforementioned levels? NA values are n…

Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels by James W. MacDonald 57k

The `voomLmFit` function will automatically fit a linear mixed model accounting for within-subject correlations if you block on patient, so…

Comment: error in getBM (biomaRt): "error: no such table: metadata" by Mike Smith ★ 5.0k

Thanks for providing this solution. Anyone else encountering the issue can test if the cache is a problem by running `getBM()` with the ar…

Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels by svlachavas ▴ 780

Dear James, thank you very much for your comment; please excuse me for my naïve additional question, but is there an example in the edgeR …

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tximeta error in fetching genome info

Answer: error in getBM (biomaRt): "error: no such table: metadata"

C: DESeq2 design formula: single control for multiple conditions [RIP-seq]

DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)

Answer: cannot install edgeR on M1 Mac

Awards • All

Scholar to James W. MacDonald 57k

Teacher to Guido Hooiveld ★ 3.0k

Scholar to Michael Love 33k