Bioconductor Limpa

Showing : limpa • reset

votes

views

limpa

updated 4 days ago by Gordon Smyth 53k • written 4 days ago by Diego FGR • 0

vote

replies

289

views

limpa

14 days ago • updated 6 days ago JKim • 0

votes

replies

131

views

limpa

updated 14 days ago by Gordon Smyth 53k • written 14 days ago by Julia Broadbent • 0

votes

replies

181

views

limpa

25 days ago • updated 18 days ago james.eapen • 0

votes

replies

416

views

limpa

10 weeks ago • updated 8 weeks ago Phinney, Brett ▴ 10

votes

370

views

limma limpa

updated 4 months ago by Gordon Smyth 53k • written 4 months ago by abadgerw • 0

votes

replies

1.3k

views

limpa limma trend

updated 6 months ago by Gordon Smyth 53k • written 6 months ago by Alejandro • 0

7 results • Page 1 of 1

Recent ...

Replies

Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150

Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?

Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k

BTW, I tested with no issue on MacOS ARM on our previous github issue.

Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k

The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…

Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Votes

C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

Awards • All

Popular Question to James W. MacDonald 68k