Showing : Ashr • reset
0
votes
4
replies
1.4k
views
lfc direction of effect flipped for ashr, apeGLM, but accurate to biological data for non-shrunken
DESeq2 apeglm DESeq ApeGLM Ashr
updated 2.4 years ago by 43k • written 2.4 years ago by ▴ 20
3
votes
2
replies
1.8k
views
Ashr and IHW
Ashr LFCShrinkage IHW DESeq2
4.0 years ago • updated 3.9 years ago Bex • 0
1
vote
5
replies
2.2k
views
lfcShrink probelm in many 0 count genes RNA-seq data
ashr DESeq2 apeglm
updated 4.3 years ago by 43k • written 4.3 years ago by ▴ 40
2
votes
2
replies
1.4k
views
Negative svalues from DESeq2 lfcShrink with ashr
ashr DESeq2 lfcShrink svalue
4.7 years ago Enrico • 0
2
votes
1
reply
1.3k
views
padj NA after shrinking log2FC (DESeq2)
deseq2 ashr
5.2 years ago da.de ▴ 30
3
votes
4
replies
2.1k
views
Massive L2FC in DESeq2
deseq2 ashr rna-seq
5.6 years ago Alex • 0
0
votes
2
replies
993
views
Ashr error: Optimization failed to converge. Results may be unreliable. Try increasing maxiter and rerunning.
ashr
5.6 years ago kavator ▴ 30
0
votes
5
replies
3.1k
views
Deseq2, lfcThreshold .
ashr Deseq2 lfcThreshold
updated 4.2 years ago by 43k • written 5.6 years ago by • 0
8 results • Page 1 of 1
Recent ...
Replies
Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR by efoss ▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma by Gordon Smyth 53k
Answered here: https://support.bioconductor.org/p/16318/
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0
Thank you very much! will take that into consideration
Votes
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
Awards • All
Popular Question to Hervé Pagès 16k
Popular Question to jared.andrews07 ▴ 30
Popular Question to James W. MacDonald 68k
Popular Question to shepherl 4.2k
Popular Question to Gordon Smyth 53k
Locations • All
The city by the bay, 9 minutes ago
United States, 47 minutes ago
United States, 1 hour ago
Seattle, WA, United States, 1 hour ago
WEHI, Melbourne, Australia, 2 hours ago
Traffic: 587 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6