Bioconductor Svd

Showing : svd • reset

votes

replies

1.3k

views

svd methylation champ

updated 2.5 years ago by shepherl 4.2k • written 2.5 years ago by Giulia • 0

votes

replies

656

views

distance svd

2.8 years ago Lenny186 • 0

votes

replies

2.5k

views

ChAMP SVD Array Slide Sample Plate

updated 7.1 years ago by Yuan Tian ▴ 290 • written 7.1 years ago by yuabrahamliu • 0

votes

replies

3.7k

views

sva svd explained variance pca

updated 9.0 years ago by Jeff Leek ▴ 650 • written 9.0 years ago by Mattia ▴ 10

votes

2.5k

views

champ methylation 450k SVD EPIC News

9.2 years ago Yuan Tian ▴ 90

5 results • Page 1 of 1

Recent ...

Replies

Comment: deseq2 filter the low counts by Michael Love 43k

> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…

Comment: deseq2 filter the low counts by empty_mt • 0

Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …

Comment: deseq2 filter the low counts by Michael Love 43k

Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering

Comment: deseq2 filter the low counts by empty_mt • 0

Hi Michael, My matrix consists of 36 samples from 6 treatments (6 samples/ treatment), whether I adjust prefiltering parameters or not, in…

Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0

That works. I didn't realize what you said about HDF5 files. We always keep those and archive the MTX files. I'm able to read in the file…

Votes

Comment: deseq2 filter the low counts

Answer: DESeq2 interactions

Answer: Important: Bioconductor Release 3.22 Delayed

A: Multi-level experiments in Limma

Answer: Should voomWithQualityWeights still be used when the sample-specific weights var

Awards • All

Popular Question to Ou, Jianhong ★ 1.3k