Bioconductor Coldata

Showing : coldata • reset

votes

replies

1.3k

views

DESeq2 design coldata

updated 21 months ago by swbarnes2 ★ 1.4k • written 21 months ago by arfranco ▴ 130

votes

replies

1.4k

views

ColData pheatmap DESeq2

written 2.6 years ago by dania.khalid • 0

votes

2.2k

views

SingleCellExperiment colData rename

updated 3.0 years ago by Basti ▴ 780 • written 3.0 years ago by achoppe ▴ 10

vote

replies

981

views

BiSeq Coldata

5.7 years ago akhaira • 0

votes

replies

2.4k

views

deseq2 levels factor colData

updated 7.0 years ago by Michael Love 43k • written 7.0 years ago by ariel ▴ 20

votes

replies

50k

views

deseq2 coldata

updated 7.2 years ago by swbarnes2 ★ 1.4k • written 7.3 years ago by mjrarcher ▴ 10

vote

replies

4.9k

views

variantannotation coldata

updated 7.4 years ago by Valerie Obenchain ★ 6.8k • written 7.4 years ago by lvclark ▴ 10

votes

replies

5.0k

views

deseq2 coldata NA

updated 18 months ago by Michael Love 43k • written 7.5 years ago by t.kuilman ▴ 170

votes

replies

2.2k

views

multiassayexperiment colData

updated 8.2 years ago by Levi Waldron ★ 1.1k • written 8.2 years ago by Lluís Revilla Sancho ▴ 760

9 results • Page 1 of 1

Recent ...

Replies

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ? by Gordon Smyth 53k

I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…

Answer: Which preprocessing steps are needed before running limpa? by Gordon Smyth 53k

Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Korneel • 0

Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…

Comment: Pathway abundance data from Curatedmetagenomics by yesquokkan • 0

Hello, I was also wondering about the same issue. Did you figure it out?

Comment: [DESeq2] Changing dispersion estimates between runs of DESeq2 by colinmccornack • 0

FWIW: This seems to be due to architectural differences between two compute nodes I was running on, specifically with the DESeq2:::fitNbino…

Votes

Answer: Subsetting data verses contrasts [DESeq2]?

A: WGCNA differences two groups 10 replicates each group

A: WGCNA sample size minimum: why?

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name

Answer: Can you colour dendrogram branch clusters in pheatmap?

Awards • All

Popular Question to Peter Hickey ▴ 760