Bioconductor Batchqc

Showing : batchqc • reset

votes

replies

737

views

BatchQC BatchEffect rnaseqGene Normalization

updated 12 months ago by jessica.anderson ▴ 10 • written 13 months ago by Đình Vinh • 0

votes

replies

861

views

BatchQC BatchEffect RNASeq

updated 12 months ago by jessica.anderson ▴ 10 • written 13 months ago by ttt • 0

votes

replies

1.3k

views

BatchQC batchinDeseq2. columnsincolData.

13 months ago Galina • 0

votes

replies

2.4k

views

BatchQC RNASeqData sva BatchEffect

updated 23 months ago by ATpoint ★ 4.9k • written 23 months ago by amnahsiddiqa ▴ 10

votes

1.2k

views

TCGAbiolinks BatchQC BatchEffect

updated 22 months ago by wrab425 • 0 • written 2.3 years ago by snijesh ▴ 200

votes

1.2k

views

BatchQC

updated 4.3 years ago by Malcolm Cook ★ 1.6k • written 4.3 years ago by Josh • 0

votes

replies

1.0k

views

BatchQC RNA-seq R Shiny batch-effect

5.2 years ago manninm • 0

7 results • Page 1 of 1

Recent ...

Replies

Comment: 6 groups to compare DESeq2 (Wald vs LRT) by Rocio • 0

I used ``` dds <- DESeq(dds) resultsNames(dds) [1] "Intercept" "group_treatment1_vs_longer_disease" [3] "group_healthy_vs…

Comment: How to use goana function with zebrafish genome from org.Dr.eg.db by Eric • 0

Thank you, that fixed the issue. I must have missed that when going back and debugging.

Comment: Is voomByGroup available in limma? by richardallenfriedmanbrooklyn ▴ 30

Gordon, Thanks as always. Rich

Answer: Is voomByGroup available in limma? by Gordon Smyth 52k

voomByGroup is available from https://github.com/YOU-k/voomByGroup

Answer: How to use goana function with zebrafish genome from org.Dr.eg.db by Gordon Smyth 52k

The problem isn't with goana() but with how you have computed gene counts in the first place. When you assign aligned reads to genes, the c…

Votes

Answer: Is voomByGroup available in limma?

Answer: limma duplicateCorrelation appropriate where some blocks cross condition and som

Comment: Ensembl 114 / Ensembl Genomes 61 has been released!

Answer: DESeq2 empirical bayes: variance of the prior for log fold changes (LFC)

Awards • All