Bioconductor Bam file

Showing : bam file • reset

vote

replies

23k

views

R rnaseq bam file

updated 5.6 years ago by Gordon Smyth 48k • written 5.6 years ago by Merlin ▴ 10

votes

replies

944

views

bam file STAR Illumina

updated 5.6 years ago by ta_awwad ▴ 10 • written 5.6 years ago by soheilazareie • 0

votes

replies

1.5k

views

bioconductor shortread bam file nucler

updated 5.8 years ago by Dario Strbenac ★ 1.5k • written 5.8 years ago by jfgout ▴ 10

votes

replies

1.3k

views

paired-end reads bam file

6.0 years ago ioannis.vardaxis ▴ 30

vote

replies

4.3k

views

bam file HIV cytosine

6.2 years ago • updated 6.1 years ago achaillon • 0

vote

replies

3.5k

views

rsamtools bam file

updated 6.3 years ago by Martin Morgan 25k • written 6.3 years ago by seungjoon.kim • 0

votes

1.1k

views

medips bam file

7.5 years ago fkuo ▴ 10

votes

replies

1.2k

views

csaw up regions bam file gain and loss of enrichment

updated 7.7 years ago by Aaron Lun ★ 28k • written 7.7 years ago by JoannaF ▴ 10

8 results • Page 1 of 1

Recent ...

Replies

Answer: EdgeR: Exact test and glmQLFTest produce very different results by Gordon Smyth 48k

Yes, what you see is what is expected. The whole purpose of the edgeR-quasi pipeline is to give more rigorous control of the FDR rate so it…

Comment: limma::voom vs edgeR::voomLmFit - when to use? by Gordon Smyth 48k

Reitering James' answer, there is no reason not to use `voomLmFit` if you were planning to follow `voom` by `lmFit`. The reason why `voomLm…

Answer: EdgeR: Exact test and glmQLFTest produce very different results by James W. MacDonald 64k

You should just use the quasi-likelihood pipeline, which controls type I error better than the exact test or likelihood ratio test.

Answer: limma::voom vs edgeR::voomLmFit - when to use? by James W. MacDonald 64k

The workflow you reference was written in 2018, and hasn't been updated since 2020, except for version bumps (it's meant to parallel an F10…

Comment: 'Subtracting' counts on basis of Negative control media and water samples by Karthik • 0

I have entered the picture only in the analysis stage - the sequencing has all been performed and done. > Besides, likely the noise level…

Votes

Answer: EdgeR: Exact test and glmQLFTest produce very different results

Answer: limma::voom vs edgeR::voomLmFit - when to use?

A: DSS understanding delta option and posterior probability

Comment: Ensembl down???

Answer: How should I run ssGSEA Hallmark Enrichment Analysis?

Awards • All