Showing : log2fc • reset
1
vote
4
replies
712
views
log2FC calculation in EdgeR
edger log2FC
updated 17 days ago by • 0 • written 23 months ago by • 0
2
votes
4
replies
567
views
Standard error of log2FC from DESeq in time series experiment
deseq2 log2fc standard error timecourse
updated 3.6 years ago by • 0 • written 3.6 years ago by • 0
0
votes
3
replies
672
views
disagreement between log2FoldChange and lfcMLE in DESeq2
deseq2 log2fc shrinkage
updated 3.8 years ago by 34k • written 3.8 years ago by ▴ 70
1
vote
3
replies
3.1k
views
log2 fold change calculation for DE gene analysis
deseq2 L2FC log2fc
updated 4.1 years ago by 34k • written 4.1 years ago by ▴ 30
0
votes
2
replies
2.2k
views
DESEq2 log2FoldChange and lfcSE calculations
deseq2 log2fc
updated 4.9 years ago by 34k • written 4.9 years ago by ▴ 70
2
votes
2
replies
924
views
Can I calculate counts from the base mean and log2fc outputs of DESeq2? Also, can I calculate error for counts values from lfcse output?
deseq2 chipseq counts log2fc error
updated 5.3 years ago by 34k • written 5.3 years ago by • 0
6
votes
6
replies
3.4k
views
Does limma calculate pvalues using log2 fold changes or with linear values?
limma pvalue log2fc log2
updated 5.5 years ago by ★ 27k • written 5.5 years ago by ▴ 60
0
votes
10
replies
4.5k
views
DESEQ2: apparently wrong log2(fold-change) calculation
deseq2 differential gene expression log2fc
5.5 years ago Osvaldo ▴ 30
1
vote
3
replies
1.7k
views
Log2 foldchange in DESeq2
deseq2 R log2fc
updated 5.8 years ago by 34k • written 5.8 years ago by • 0
1
vote
5
replies
1.0k
views
Log2FC values very small with SCAN
scan Log2FC
updated 6.2 years ago by 43k • written 6.2 years ago by ▴ 20
10 results • Page 1 of 1
Recent ...
Replies
Answer: Error in makeTxDbFromGFF(txomeInfo$gtf) by Michael Love 34k
I see that tximeta found a linked transcriptome. Can you show this part of your code as well? How did you create the `linkedTxome`?
Comment: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi by Gordon Smyth 43k
You need to start by doing an ordinary paired analysis.
Comment: Recalculated abundance data output table with DEseq2 by Michael Love 34k
Yes, DESeq() then results(). When you print the table it will say MLE. No we don’t have a function to do that.
Comment: Recalculated abundance data output table with DEseq2 by michael.morash • 0
Thanks for getting back to me so quickly. The final comparison we are looking to report are the effects of filtering out low count genes us…
Comment: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi by Field -Ye • 0
Hi Professor Smyth, Thank you for pointing me to your previous publication. I went through the verbal part and found you did pursue the DG…
Votes
Answer: Degust: what normalization method does it use
Answer: ylim and xlim in Enhanced Volcano
Answer: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi
Error in .rowNamesDF<-(x, value = value) :duplicate row.names are not allowed DESeq2
Comment: How to build a GRangesList where each GRanges element is a CDS coordinate of gen
Awards • All
Scholar to Rory Stark ★ 4.1k
Scholar to jbnrodriguez • 0
Scholar to Yang Liao ▴ 260
Scholar to James W. MacDonald 58k
Teacher to Michael Love 34k
Locations • All
China, 7 minutes ago
United States, 20 minutes ago
Australia, 33 minutes ago
United States, 37 minutes ago
The city by the bay, 1 hour ago
Traffic: 261 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