Bioconductor UNIX

Showing : UNIX • reset

3

votes

3

replies

2.3k

views

garfield awk unix shell embl-ebi

updated 4.5 years ago by bk11 • 0 • written 6.5 years ago by rodrigo.duarte88 ▴ 40

3

votes

3

replies

2.1k

views

deseq2 scp Unix Single-Cell

updated 5.7 years ago by Martin Morgan 25k • written 5.7 years ago by vincent.croset ▴ 20

0

votes

0

replies

1.2k

views

keggprofile UNIX error exit

10.8 years ago gregory voisin ▴ 430

3 results • Page 1 of 1

Recent ...

Replies

Answer: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by Michael Love 43k

I'm not familiar with this usage, or code here ``` normFactors <- exp(-1 * offst(set2)) ``` In the RNA-seq gene-level workflow, we …

Answer: Which of apeglm and ashr may be more appropriate for pseudobulked DESeq2 analysi by Michael Love 43k

> apeglm appears much more aggressive in shrinkage, pushing many genes toward logFC = 0 > ashr maintains a gradient of shrinkage val…

Comment: voomLmFit fitted log-CPM values by Gordon Smyth 53k

The fitted values are on the log2CPM scale. I would have told you if they were not! I think you may be getting confused by the differences…

Comment: voomLmFit fitted log-CPM values by Lina ▴ 10

Is the output from fitted(v) in the log2 CPM scale? or CPM scale?

Answer: voomLmFit fitted log-CPM values by Gordon Smyth 53k

Fitted values are obtained from limma MArrayLM objects by ``` fitted(v) ```

Votes

A: How barcode-plot enrichment is calculated?

Answer: ROAST compare results with complex design

Awards • All