Bioconductor DEP

Showing : DEP • reset

votes

replies

419

views

error DEP

10 months ago kcpaul168 • 0

votes

909

views

DEP

updated 8 months ago by Simran • 0 • written 2.7 years ago by hele7 ▴ 20

votes

replies

1.5k

views

Proteomics DEP limma

written 2.4 years ago by barrypraveen • 0

vote

replies

397

views

LFQ DEPpackage run_app('LFQ') ShinyApps DEP

updated 4 months ago by Ram ▴ 180 • written 5 months ago by d.kozhevnikova ▴ 10

votes

replies

330

views

LFQ R DEP error

8 months ago aymanreffai • 0

votes

316

views

DEP PrincipalComponent PCA plot_pca

updated 8 months ago by Basti ▴ 740 • written 8 months ago by fuqichen1 • 0

6 results • Page 1 of 1

Recent ...

Replies

Answer: Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DE by James W. MacDonald 64k

The short answer is that you don't. `tximport` is meant to summarize transcript abundance estimates at the gene level, and as you might ima…

Comment: Inconsistent results in DiffBind by ATpoint ★ 3.6k

One is the "raw" logFCs, not corrected for the standard error of the logFCs, the other one the shrunken logFCs from DESeq2 lfcShrink, "corr…

Answer: Can't download Bioconductor by James W. MacDonald 64k

[You need to update][1]. [1]: https://cran.r-project.org/web/packages/BiocManager/vignettes/BiocManager.html#basic-use

Comment: Can't download Bioconductor by ATpoint ★ 3.6k

Please see especially the 1st and 2nd point in https://www.bioconductor.org/help/support/posting-guide/#keypoints

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by Michael Love 41k

With 3 vs 3, when one sample increases from 50 to 5000, this can lead to rejection of null hypothesis. I'm not surprised with the above cou…

Votes

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance

Answer: What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)

Answer: WGCNA documentation not available

Comment: Can the limma package be applied to Log2 RUV-normalized data?

Awards • All

Popular Question to Assa Yeroslaviz ★ 1.5k

Scholar to Gordon Smyth 49k

Popular Question to Lluís Revilla Sancho ▴ 720

Popular Question to Frederik Ziebell ▴ 20