Bioconductor De analysis

Showing : de analysis • reset

votes

replies

2.5k

views

NanoStringDiff NanoString nCounter DE analysis

updated 22 months ago by georgersmith • 0 • written 6.1 years ago by lim6432 ▴ 60

vote

replies

2.8k

views

RNAseq DESeq2 outlier counts DE analysis

updated 5.3 years ago by Kevin Blighe ★ 4.0k • written 5.3 years ago by DcL-A • 0

votes

1.2k

views

DE analysis miR deseq2 mirplant

updated 7.9 years ago by Michael Love 43k • written 7.9 years ago by weissert • 0

votes

replies

1.8k

views

rnaseq de analysis gene filtering noiseq

updated 8.1 years ago by James W. MacDonald 68k • written 8.1 years ago by Mau ▴ 50

votes

replies

3.1k

views

edgeR DE analysis fold change cpm

updated 9.1 years ago by Ryan C. Thompson ★ 7.9k • written 9.1 years ago by Sara ▴ 20

votes

replies

2.6k

views

edgeR RNAseq DE analysis gene filtering

9.1 years ago Mau ▴ 50

6 results • Page 1 of 1

Recent ...

Replies

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200

I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k

Not sure I understand. You ask how to do something and then show how one would do so.

Comment: DiffBind getting Fold values of near 0 by littlefishes20 ▴ 10

Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200

I have checked DEGs between Solvent Control (SC) of FP and LP and there are noticebale differences in terms of DEGs. ``` # Checking SC in …

Answer: A0A287BB68 not recognized as UNPROT key in org.Ss.eg.db using AnnotationDbi::sel by James W. MacDonald 68k

Apparently it's been over-ridden by a different UniProtKB ID ``` > select(org.Ss.eg.db, "MYH11", "UNIPROT", "SYMBOL") 'select()' retu…

Votes

How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?

Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea

Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi

Can NanoString data be analyzed using DESeq2?

Awards • All