Biostar Panther.db

Showing : panther.db • reset

4

votes

4

replies

792

views

topGO Gene Ontology enrichment panther.db

updated 2.4 years ago by Gordon Smyth 47k • written 2.4 years ago by Brian Smith ▴ 120

0

votes

1

reply

772

views

PANTHER.db update annotation go

updated 4.0 years ago by Martin Morgan 25k • written 4.0 years ago by alfonsosaera • 0

2 results • Page 1 of 1

Recent ...

Replies

Answer: collapseReplicates error after tximeta by Michael Love 39k

The issue is that `collapseReplicates` just collapses `counts` and doesn't account for multiple assays which you need for e.g. Swish or oth…

Comment: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it by ATpoint ★ 2.1k

That having said, I recommend to inspect the MA-plots (`plotMA()`), at best the ones produced right from `res <- results(dds); plotMA(res)`…

Answer: Which genes are outliers in DESeq2? by ATpoint ★ 2.1k

You can take over some of the lines from `results()` to find them easily: ```r suppressPackageStartupMessages(library(DESeq2)) set.s…

Answer: Which genes are outliers in DESeq2? by Michael Love 39k

Outliers will have high maxCooks values in `mcols(dds)` -- the threshold is `qf(.99, p, n - p)` where n is sample size and p is number of c…

Answer: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it by Michael Love 39k

Specifying `controlGenes` means it estimates the size factors over those rows. But size factors when used later as offsets in GLM or when u…

Votes

Awards • All

Popular Question to Guido Hooiveld ★ 3.5k

Scholar to James W. MacDonald 62k

Commentator to Michael Love 39k