Bioconductor BatchtoolsParam

Showing : BatchtoolsParam • reset

6

votes

8

replies

2.3k

views

biocparallel BatchtoolsParam

updated 6.1 years ago by Mike Smith ★ 6.6k • written 6.1 years ago by Chao-Jen Wong ▴ 40

2

votes

4

replies

1.3k

views

BatchtoolsParam BiocParallel

2.7 years ago • updated 2.6 years ago jianhai.zhang • 0

1

vote

1

reply

990

views

BatchtoolsParam MulticoreParam BiocParallel

updated 2.7 years ago by Martin Morgan 25k • written 2.7 years ago by jianhai.zhang • 0

3 results • Page 1 of 1

Recent ...

Replies

Answer: RSubread output significantly different from bash Subread output by Gordon Smyth 52k

The difference (as ATpoint has correctly pointed out) is that Rsubread::featureCounts counts multi-mapping reads by default whereas the com…

Answer: Deseq2 Error in solve.default(qr.R(qrx)) : 'a' (1 x 0) must be square by Michael Love 43k

I would check the rank of your model matrix, and perhaps meet with a local statistician who can help you create an appropriate design matri…

Comment: sva: get a sv for RIN scores by gabriel.hoffman ▴ 170

Agreed. I'll add that with small sample size, a covariate can explain some fraction of expression variation even under the null.

Comment: RSubread output significantly different from bash Subread output by Aimee • 0

Thank you! I will try rerunning with that parameter and see if it fixes the discrepancy! I'll report back. Update: This completely resolve…

Answer: RSubread output significantly different from bash Subread output by ATpoint ★ 4.6k

The R version counts multimappers (countMultiMappingReads is TRUE by default) while the command line version does not. It's beyond me why t…

Votes

Awards • All

Teacher to Michael Love 43k

Popular Question to Dario Strbenac ★ 1.5k

Scholar to ATpoint ★ 4.6k