Showing : Diffbind • reset
2
votes
2
replies
2.1k
views
DiffBind; Error: No sites have activity greater than filter value
DiffBind
updated 8 months ago by • 0 • written 2.4 years ago by ▴ 10
0
votes
2
replies
976
views
In DiffBind, dba.blacklist changes the minOverlap parameter
DiffBind
written 2.1 years ago by ▴ 10
1
vote
2
replies
817
views
Inconsistent results in DiffBind
DiffBind
2.1 years ago Sam ▴ 10
1
vote
2
replies
924
views
DiffBind getting Fold values of near 0
DiffBind DESeq2
updated 4 months ago by ▴ 10 • written 2.1 years ago by • 0
0
votes
0
replies
1.0k
views
Calculation of ChIP-seq normalization factors with non-conventional spike-in assumptions
csaw ChIPseq DiffBind
2.1 years ago jared.andrews07 ▴ 30
0
votes
0
replies
987
views
DiffBind dba.count() crash/can't finish problems
dba.count DiffBind ATACSeq
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
2
votes
4
replies
2.0k
views
DiffBind returns different grey lists every time I run dba.blacklist even if I set seed.
DiffBind
updated 2.2 years ago by ▴ 10 • written 2.3 years ago by • 0
2
votes
2
replies
935
views
DiffBind dba.analyze function doesn't have bSubControl option anymore?
DiffBind
2.3 years ago r.murakami • 0
1
vote
1
reply
1.3k
views
DiffBind - how to prep the sample matrix when multiple bam files are used by MACS2's -t and -c param?
DiffBind chipseq
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
3
votes
7
replies
1.8k
views
Genes in open chromatin region
ChIPpeakAnno DiffBind
written 2.3 years ago by ▴ 20
0
votes
3
replies
1.2k
views
diffbind analyze for wheat
DiffBind
updated 22 months ago by • 0 • written 2.3 years ago by • 0
0
votes
1
reply
1.1k
views
Samples have been merged or lost during counting. Check for duplicate bam files. DiffBind dbacount
DiffBind
2.4 years ago Mark ▴ 10
1
vote
2
replies
1.3k
views
DiffBind plot.profile y-axis unit and individual locus value on the heatmap
DiffBind
2.4 years ago Junsik • 0
0
votes
2
replies
935
views
DiffBind error
DiffBind
updated 2.4 years ago by ★ 5.2k • written 2.4 years ago by • 0
0
votes
2
replies
2.1k
views
DiffBind dropping peaks in ATAC-seq data
DiffBind ATACSeq
updated 2.5 years ago by ★ 1.6k • written 2.5 years ago by • 0
1
vote
1
reply
3.9k
views
Help with error DiffBind
DiffBind
updated 2.5 years ago by ★ 5.2k • written 2.5 years ago by ▴ 20
1
vote
1
reply
5.2k
views
Question regarding lfcShrink types in DiffBind
FoldChange DiffBind lfcShrink
updated 2.5 years ago by ★ 5.2k • written 2.5 years ago by ▴ 20
0
votes
5
replies
7.5k
views
diffbind
DiffBind chipseq
updated 2.5 years ago by ★ 5.2k • written 2.5 years ago by • 0
0
votes
3
replies
1.3k
views
DiffBind issue with edgeR$bTagwise and DESeq2$fitType
Config DiffBind Error
updated 2.5 years ago by ★ 5.2k • written 2.5 years ago by • 0
0
votes
5
replies
2.4k
views
DiffBind handling of replicates and consensus
diffbind
updated 2.3 years ago by ★ 5.2k • written 5.9 years ago by • 0
1
vote
4
replies
1.7k
views
diffbind dba.count error "files could not be accessed" on windows 11
DiffBind
2.5 years ago Theo ▴ 10
1
vote
2
replies
1.2k
views
DiffBind Using edgeR: TMM Normalisation produces identical results to Library Size normalisation
DiffBind
updated 2.5 years ago by ★ 5.2k • written 2.5 years ago by • 0
0
votes
1
reply
1.1k
views
DiffBind output issues
DiffBind
updated 2.5 years ago by ★ 5.2k • written 2.6 years ago by • 0
1
vote
2
replies
1.5k
views
Interpret plots from DiffBind
DiffBind
2.6 years ago • updated 2.5 years ago Chris ▴ 20
2
votes
3
replies
1.4k
views
Sample sheet file for DiffBind
DiffBind
updated 2.0 years ago by • 0 • written 2.6 years ago by ▴ 20
4
votes
4
replies
1.7k
views
DESeq2 lfcShrink function used in DiffBind package
FoldChange DiffBind lfcShrink Cut&TagData
2.6 years ago • updated 2.5 years ago bhandary.8590 ▴ 20
1
vote
0
replies
691
views
Help with error running DiffBind
DiffBind
2.6 years ago Chris ▴ 20
1
vote
7
replies
2.5k
views
Diffbind "No genome detected"
DiffBind
updated 2.1 years ago by 68k • written 2.6 years ago by • 0
8
votes
13
replies
3.6k
views
Interpret plot from DiffBind
DiffBind
updated 2.6 years ago by ★ 5.2k • written 2.6 years ago by ▴ 20
0
votes
0
replies
667
views
Title in dba.plotProfile
DiffBind
2.6 years ago agata17 • 0
0
votes
1
reply
915
views
dba.count with pre-defined regions produced only 10% results
DiffBind diffbind
updated 2.6 years ago by ★ 5.2k • written 2.6 years ago by ▴ 10
0
votes
1
reply
1.3k
views
DiffBind dba() in parallel
DiffBind
updated 2.6 years ago by ★ 5.2k • written 2.6 years ago by • 0
1
vote
4
replies
2.4k
views
DiffBind - Retrieving the differentially bound sites - HOW to calculate fold-change
ChIPSeq DiffBind
updated 2.6 years ago by ★ 5.2k • written 2.6 years ago by • 0
1
vote
0
replies
1.0k
views
Fold values in Diffbind
DiffBind
2.6 years ago bhandary.8590 ▴ 20
2
votes
3
replies
1.3k
views
Getting different differentially accessible peaks between versions
dba.report DiffBind
written 2.6 years ago by • 0
0
votes
0
replies
811
views
Help with Diffbind result
DiffBind
2.7 years ago Chris ▴ 20
3
votes
5
replies
4.2k
views
Errors with DiffBind, Error in peaks[, pCol]/max(peaks[, pCol]) : non-numeric argument to binary operator
DiffBind
updated 5 months ago by • 0 • written 2.7 years ago by ▴ 10
0
votes
7
replies
2.3k
views
DiffBind - question about showing significant difference on peaks with 0 fold change
DiffBind
2.7 years ago • updated 2.6 years ago Ti • 0
2
votes
1
reply
1.2k
views
how diffbind count the reads of each peak in each sample?
diffbind DiffBind
updated 2.7 years ago by ★ 5.2k • written 2.7 years ago by • 0
4
votes
6
replies
1.8k
views
Positive and negative value fold value in ATAC seq using DiffBind
DiffBind ATACSeq
2.7 years ago Chris ▴ 20
0
votes
1
reply
984
views
Plotting read densities from DiffBind results
Read density DiffBind
updated 2.8 years ago by ★ 5.2k • written 2.8 years ago by ▴ 20
0
votes
2
replies
1.2k
views
Question regarding multiple comparisons in DiffBind
DiffBind
2.8 years ago • updated 2.7 years ago epipally • 0
8
votes
13
replies
5.6k
views
Help with Error in DiffBind
DiffBind ATACSeq
2.8 years ago Chris ▴ 20
0
votes
2
replies
1.5k
views
Multiple issues reading in peak sets with Diffbind
DiffBind
updated 2.8 years ago by ★ 5.2k • written 2.8 years ago by • 0
0
votes
2
replies
2.2k
views
DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2?
DESeq2 ChIPSeq DiffBind edgeR HistoneModification
2.8 years ago Giulia • 0
0
votes
0
replies
851
views
DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2?
DESeq2 ChIPSeq DiffBind edgeR HistoneModification
2.8 years ago Giulia • 0
1
vote
3
replies
1.2k
views
Using DiffBind Normalization and Contrasting on Fold Change Values
DiffBind
updated 2.8 years ago by ★ 5.2k • written 2.8 years ago by • 0
1
vote
2
replies
1.1k
views
DiffBind spike-in lib.sizes confusion
SpikeIn DiffBind
2.8 years ago Weisheng • 0
0
votes
13
replies
2.9k
views
Does DiffBind make consensus peaks sets for samples from a given condition (e.g. case control)?
dba.analyze DiffBind @rory-stark-5741
2.8 years ago tahir.msajid • 0
0
votes
1
reply
709
views
DiffBind---peak region reads or all reads？
DiffBind
updated 2.8 years ago by ★ 5.2k • written 2.9 years ago by • 0
679 results • Page 2 of 14
Recent ...
Replies
Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa by Gordon Smyth 53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Comment: Guitar R package requires update due to dependency GenomicFeatures by ferran.llobet.cabau ▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
Comment: Ensembl plants at annotationHub? by Guido Hooiveld ★ 4.1k
Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
Votes
A: What is logFC and "B" in methylation analysis ??
limma moderated t-statistics and B-statistics
Comment: Guitar R package requires update due to dependency GenomicFeatures
A: how to control age and gender effect in expression data using DESeq2
A: how to control age and gender effect in expression data using DESeq2
Awards • All
Popular Question to Gordon Smyth 53k
Popular Question to Aleena_Ensembl ▴ 30
Popular Question to Hervé Pagès 16k
Teacher to Michael Love 43k
Popular Question to lianov • 0
Locations • All
United States, 24 minutes ago
United States, 29 minutes ago
The city by the bay, 1 hour ago
Barcelona, Spain, 1 hour ago
USA, 1 hour ago
Traffic: 1794 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