Bioconductor DEP

Showing : DEP • reset

0

votes

0

replies

1.7k

views

Proteomics DEP limma

written 2.8 years ago by barrypraveen • 0

1

vote

2

replies

648

views

LFQ DEPpackage run_app('LFQ') ShinyApps DEP

updated 9 months ago by Ram ▴ 190 • written 10 months ago by d.kozhevnikova ▴ 10

0

votes

3

replies

268

views

limma Differentialenrichmentanalysis DEP

updated 7 weeks ago by Gordon Smyth 50k • written 8 weeks ago by Laura • 0

0

votes

0

replies

87

views

DEP

updated 6 days ago by shepherl 3.8k • written 6 days ago by Namrata • 0

4 results • Page 1 of 1

Recent ...

Replies

Comment: Reproducibility issue with scran together with lapply and BiocParallel by ATpoint ★ 4.0k

Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0

Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…

Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k

IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…

Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0

I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…

Votes

C: null model and DEXSeqDataSet object in DEXSEQ

A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?

A: How to explain how DESeq2 works to someone with zero bioinformatics background?

Answer: Interpret plot from DiffBind

Answer: How to retrieve gene ontology GO class from gene list?

Awards • All

Supporter to JKim • 0