Bioconductor Methylkit

Showing : methylkit • reset

votes

1.1k

views

annotateWithGeneParts methylKit

2.6 years ago tanmayroy1979 ▴ 20

vote

replies

197

views

methylKit

updated 19 days ago by James W. MacDonald 65k • written 24 days ago by CHEN • 0

votes

replies

1.7k

views

methylKit

updated 6.8 years ago by altuna akalin ▴ 20 • written 6.8 years ago by ch8316f5eyu • 0

votes

replies

1.5k

views

methylkit Tutorial

updated 6.4 years ago by Martin Morgan 25k • written 6.4 years ago by s1432985 • 0

votes

replies

1.1k

views

R bioconductor methylation methylkit

updated 5.8 years ago by altuna akalin ▴ 20 • written 5.8 years ago by nilaycan • 0

votes

replies

1.2k

views

methylkit normalizecoverage NA

updated 5.5 years ago by altuna akalin ▴ 20 • written 5.5 years ago by GFM ▴ 20

votes

1.1k

views

methylkit

updated 2.5 years ago by alex.gos90 ▴ 10 • written 2.9 years ago by hasche • 0

votes

replies

1.6k

views

methylKit bioconductor

updated 7.7 years ago by Martin Morgan 25k • written 7.7 years ago by tangming2005 ▴ 190

votes

replies

428

views

methylKit

8 months ago Andrés • 0

votes

1.1k

views

methylation methylKit bsseq

updated 2.5 years ago by alex.gos90 ▴ 10 • written 2.8 years ago by ag1805x ▴ 80

votes

replies

642

views

methyl methylKit

2.1 years ago hasche • 0

votes

581

views

methRead methylkit

16 months ago liulip • 0

votes

115

views

methylKit

19 days ago Modoc Kesner ▴ 10

votes

replies

1.5k

views

GenomicRanges methylKit S4Vectors

updated 2.1 years ago by James W. MacDonald 65k • written 2.1 years ago by hasche • 0

votes

replies

1.7k

views

methylKit

6.9 years ago kamal.fartiyal84 ▴ 10

15 results • Page 1 of 1

Recent ...

Replies

Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k

> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …

Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10

With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.

Answer: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k

Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…

Comment: get BM error by James W. MacDonald 65k

I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…

Votes

C: when to apply quantile normalization with voom in limma/voom framework with RNA-

A: How to know if I should use voomWithQualityWeights() or not?

A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom

Answer: Log-cpm values from limma

Awards • All

Supporter to Jonathan ▴ 10