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Showing :
Diffbind
•
reset
0
votes
0
replies
24
views
DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind
ATACSeq
23 hours ago
Pierre Lindenbaum
▴ 10
0
votes
0
replies
81
views
Multifactor analysis in DiffBind
DiffBind
multifactoranalysis
8 days ago
erbrocato
• 0
0
votes
2
replies
176
views
Scores used for DiffBind's dba.plotHeatmap
DiffBind
16 days ago • updated 15 days ago
Sam
▴ 10
0
votes
1
reply
145
views
Exact same results in Diffbind with different normalization methods
DiffBind
17 days ago • updated 12 days ago
red_bricks
▴ 50
0
votes
1
reply
242
views
Extracting binding matrix with raw counts from DiffBind in ATAC-seq data not working
DiffBind
ATACSeq
9 weeks ago
isaromero8888
• 0
0
votes
0
replies
166
views
Which normalization should I do use for ATAC Seq using DiffBind
DiffBind
edgeR
ATACSeq
DESeq2
9 weeks ago
Jawahar
• 0
0
votes
0
replies
126
views
Parameter bSubControl with no effect in DiffBind dba.count?
bSubControl
ChIPSeq
DiffBind
10 weeks ago
frueher
• 0
0
votes
0
replies
131
views
Errror in running EdgeR based differential analysis in diffbind
DiffBind
10 weeks ago
Aswathy
• 0
0
votes
0
replies
182
views
Differential Binding of CUT&Tag peaks with normalization using scaling factor
DiffBind
CUT&Tag
12 weeks ago
Hai
• 0
0
votes
0
replies
205
views
ATACseq- Counts around TSS plot
DiffBind
ATACSeq
3 months ago
inna.gur
• 0
0
votes
1
reply
880
views
DiffBind; Error: No sites have activity greater than filter value
DiffBind
updated 3 months ago by
qq809825706
• 0 • written 7 months ago by
Mark
• 0
0
votes
2
replies
298
views
In DiffBind, dba.blacklist changes the minOverlap parameter
DiffBind
written 3 months ago by
Sam
▴ 10
1
vote
2
replies
275
views
Inconsistent results in DiffBind
DiffBind
3 months ago
Sam
▴ 10
1
vote
1
reply
292
views
DiffBind getting Fold values of near 0
DiffBind
DESeq2
updated 3 months ago by
ATpoint
★ 4.0k • written 3 months ago by
Miquel
• 0
0
votes
0
replies
285
views
Calculation of ChIP-seq normalization factors with non-conventional spike-in assumptions
csaw
ChIPseq
DiffBind
4 months ago
jared.andrews07
▴ 30
0
votes
0
replies
344
views
DiffBind dba.count() crash/can't finish problems
dba.count
DiffBind
ATACSeq
updated 5 months ago by
James W. MacDonald
65k • written 5 months ago by
sophie.hfliu
• 0
2
votes
4
replies
1.2k
views
DiffBind returns different grey lists every time I run dba.blacklist even if I set seed.
DiffBind
updated 5 months ago by
Matt Eldridge
• 0 • written 5 months ago by
r.murakami
• 0
2
votes
2
replies
424
views
DiffBind dba.analyze function doesn't have bSubControl option anymore?
DiffBind
5 months ago
r.murakami
• 0
1
vote
1
reply
392
views
DiffBind - how to prep the sample matrix when multiple bam files are used by MACS2's -t and -c param?
DiffBind
chipseq
updated 6 months ago by
James W. MacDonald
65k • written 6 months ago by
lin.pei26
• 0
3
votes
7
replies
795
views
Genes in open chromatin region
ChIPpeakAnno
DiffBind
written 6 months ago by
Chris
• 0
0
votes
3
replies
559
views
diffbind analyze for wheat
DiffBind
updated 29 days ago by
Igor
• 0 • written 6 months ago by
zgyu12
• 0
0
votes
1
reply
495
views
Samples have been merged or lost during counting. Check for duplicate bam files. DiffBind dbacount
DiffBind
7 months ago
Mark
• 0
1
vote
2
replies
559
views
DiffBind plot.profile y-axis unit and individual locus value on the heatmap
DiffBind
7 months ago
Junsik
• 0
0
votes
2
replies
419
views
DiffBind error
DiffBind
updated 7 months ago by
Rory Stark
★ 5.1k • written 7 months ago by
M.Vukic
• 0
0
votes
2
replies
744
views
DiffBind dropping peaks in ATAC-seq data
DiffBind
ATACSeq
updated 8 months ago by
Malcolm Cook
★ 1.6k • written 8 months ago by
Nebat
• 0
1
vote
1
reply
1.7k
views
Help with error DiffBind
DiffBind
updated 8 months ago by
Rory Stark
★ 5.1k • written 8 months ago by
Chris
• 0
1
vote
1
reply
2.0k
views
Question regarding lfcShrink types in DiffBind
FoldChange
DiffBind
lfcShrink
updated 8 months ago by
Rory Stark
★ 5.1k • written 8 months ago by
bhandary.8590
▴ 20
0
votes
5
replies
2.7k
views
diffbind
DiffBind
chipseq
updated 8 months ago by
Rory Stark
★ 5.1k • written 8 months ago by
ANAMIKA
• 0
0
votes
3
replies
550
views
DiffBind issue with edgeR$bTagwise and DESeq2$fitType
Config
DiffBind
Error
updated 8 months ago by
Rory Stark
★ 5.1k • written 8 months ago by
jason.kost
• 0
0
votes
5
replies
1.1k
views
DiffBind handling of replicates and consensus
diffbind
updated 6 months ago by
Rory Stark
★ 5.1k • written 4.1 years ago by
Jim
• 0
0
votes
4
replies
755
views
diffbind dba.count error "files could not be accessed" on windows 11
DiffBind
8 months ago
Theo
• 0
1
vote
2
replies
623
views
DiffBind Using edgeR: TMM Normalisation produces identical results to Library Size normalisation
DiffBind
updated 8 months ago by
Rory Stark
★ 5.1k • written 8 months ago by
Stevie Pederson
• 0
0
votes
1
reply
507
views
DiffBind output issues
DiffBind
updated 9 months ago by
Rory Stark
★ 5.1k • written 9 months ago by
David.Atkinson2
• 0
1
vote
2
replies
705
views
Interpret plots from DiffBind
DiffBind
9 months ago
Chris
• 0
2
votes
3
replies
561
views
Sample sheet file for DiffBind
DiffBind
updated 11 weeks ago by
meghanapple2
• 0 • written 9 months ago by
Chris
• 0
4
votes
4
replies
745
views
DESeq2 lfcShrink function used in DiffBind package
FoldChange
DiffBind
lfcShrink
Cut&TagData
9 months ago
bhandary.8590
▴ 20
0
votes
0
replies
383
views
Help with error running DiffBind
DiffBind
9 months ago
Chris
• 0
1
vote
7
replies
1.1k
views
Diffbind "No genome detected"
DiffBind
updated 4 months ago by
James W. MacDonald
65k • written 9 months ago by
kyliecode
• 0
7
votes
13
replies
1.7k
views
Interpret plot from DiffBind
DiffBind
updated 9 months ago by
Rory Stark
★ 5.1k • written 10 months ago by
Chris
• 0
0
votes
0
replies
360
views
Title in dba.plotProfile
DiffBind
10 months ago
agata17
• 0
0
votes
1
reply
528
views
dba.count with pre-defined regions produced only 10% results
DiffBind
diffbind
updated 10 months ago by
Rory Stark
★ 5.1k • written 10 months ago by
littlefishes20
▴ 10
0
votes
1
reply
595
views
DiffBind dba() in parallel
DiffBind
updated 10 months ago by
Rory Stark
★ 5.1k • written 10 months ago by
Shashank
• 0
1
vote
4
replies
922
views
DiffBind - Retrieving the differentially bound sites - HOW to calculate fold-change
ChIPSeq
DiffBind
updated 10 months ago by
Rory Stark
★ 5.1k • written 10 months ago by
lin.pei26
• 0
1
vote
0
replies
518
views
Fold values in Diffbind
DiffBind
10 months ago
bhandary.8590
▴ 20
2
votes
3
replies
731
views
Getting different differentially accessible peaks between versions
dba.report
DiffBind
written 10 months ago by
jandrade
• 0
0
votes
0
replies
446
views
Help with Diffbind result
DiffBind
10 months ago
Chris
• 0
3
votes
4
replies
1.7k
views
Errors with DiffBind, Error in peaks[, pCol]/max(peaks[, pCol]) : non-numeric argument to binary operator
DiffBind
10 months ago
Mark
• 0
0
votes
7
replies
1.3k
views
DiffBind - question about showing significant difference on peaks with 0 fold change
DiffBind
11 months ago • updated 10 months ago
Ti
• 0
2
votes
1
reply
546
views
how diffbind count the reads of each peak in each sample?
diffbind
DiffBind
updated 11 months ago by
Rory Stark
★ 5.1k • written 11 months ago by
hfyuan2016
• 0
0
votes
5
replies
1.1k
views
DiffBind - question on the use of filtered or unfiltered input data
DiffBind
updated 10 months ago by
householdelsewhere
• 0 • written 11 months ago by
Oscar
• 0
50 results • Page
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Michael Love
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May be documented by the software you are using? https://github.com/lpantano/DEGreport
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Yes that is correct
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It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
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transcript name mapping between human and mouse
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