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diffbind
•
reset
1
vote
9
replies
4.5k
views
DiffBind - question on the use of filtered or unfiltered input data
DiffBind
written 2.2 years ago by
Oscar
▴ 10
0
votes
0
replies
85
views
DiffBind plot.profile error
BiocParallel
DiffBind
23 days ago
this_is_me_trying
• 0
0
votes
0
replies
587
views
Diffbind Analysis gives error during profile plotting stage. Error in value[[3L]](cond) : profileplyr error: Error: BiocParallel errors 1 remote…
chipseq
profileplyr
DiffBind
6 weeks ago
Muhammad
• 0
0
votes
0
replies
233
views
I want my overlapping peaks to stop merging by default doing read counting (using DiffBind in R-studio)
peakoverlap
mergingpeaks
ChIPseq
DiffBind
11 weeks ago
atlanta
• 0
0
votes
4
replies
2.1k
views
DiffBind can't find a DAR
dar
ATACSeq
DiffBind
11 weeks ago • updated 10 weeks ago
Mengjun
• 0
0
votes
0
replies
125
views
DiffBind multi-tissue comparison
DiffBind
3 months ago
lryrainche
• 0
1
vote
8
replies
2.4k
views
[ChIP-seq] DESeq2 on counts matrix from union set of called peaks
csaw
ChIPseq
DESeq2
DiffBind
3 months ago • updated 11 weeks ago
Luca
• 0
0
votes
0
replies
212
views
DiffBind recommendation on using IgG bams
peakcalling
DiffBind
3 months ago
Harish
• 0
0
votes
4
replies
1.2k
views
DiffBind edgeR normalization --- why are the normalization factors all equal to 1?
edgeR
DiffBind
updated 3 months ago by
Harry
• 0 • written 3 months ago by
tifaGis
• 0
0
votes
1
reply
218
views
building samplesheet and plot profile
DiffBind
4 months ago
yf
• 0
0
votes
5
replies
579
views
Diffbind interpretation of data - fold change
DiffBind
5 months ago
Vera
• 0
0
votes
0
replies
456
views
Diffbind: Cut&Run: E-coli spike-in
Normalization
DiffBind
7 months ago
kim
• 0
0
votes
0
replies
306
views
diffbind covariates
DiffBind
ATACSeq
updated 8 months ago by
Michael Love
43k • written 8 months ago by
Alpesh Querer
▴ 220
0
votes
2
replies
817
views
DiffBind dba.report discrepancy
DiffBind
8 months ago
aelbassiouny
• 0
0
votes
0
replies
233
views
DiffBind subset replicates
DiffBind
8 months ago
Haiping
• 0
0
votes
0
replies
438
views
Background normalization of Diffbind dba.normalize
Normalization
DiffBind
8 months ago
Young Boqin
• 0
0
votes
0
replies
381
views
Trying to understand basic DiffBind usage
ChIPSeq
DiffBind
9 months ago
Alejandro
• 0
0
votes
2
replies
525
views
DiffBind for MBD-seq
MBD-seq
DiffBind
10 months ago
Marianna
▴ 20
0
votes
1
reply
615
views
DiffBind - observation that the default union overlap is actually a gap of 1 bp
DiffBind
10 months ago • updated 4 months ago
Ian D.
▴ 70
0
votes
1
reply
470
views
DiffBind remove Unplace Chromosome (chrUn)
DiffBind
10 months ago
mdidish
▴ 10
0
votes
0
replies
385
views
DiffBind dba.plotprofile y-axis range
DiffBind
10 months ago
Tara
• 0
0
votes
8
replies
1.1k
views
DiffBind full library size not reliable
DiffBind
Reads
MACS2
FullLibSize
updated 10 months ago by
Rory Stark
★ 5.2k • written 10 months ago by
Marianna
▴ 20
1
vote
3
replies
771
views
Create merged ChIP heatmap across conditions
DiffBind
profileplyr
updated 11 months ago by
Rory Stark
★ 5.2k • written 11 months ago by
jesswhitts
• 0
0
votes
0
replies
575
views
Blacklist regions on DBA object (diffbind)
DiffBind
chipseq
12 months ago
gamma.jian
▴ 10
0
votes
2
replies
765
views
Trouble reading samplesheet in with diffbind to create dba
DiffBind
DifferentialPeakCalling
12 months ago
Mallory
• 0
0
votes
0
replies
410
views
Difference in Contrast in DiffBind
DiffBind
13 months ago
user_bioinfo
• 0
0
votes
0
replies
423
views
need help with Diffbind multiple groups
DiffBind
ChIPSeqData
13 months ago
Dinesh
• 0
0
votes
1
reply
850
views
dba.plotProfile() plotting and interpretation
DiffBind
updated 7 months ago by
B.N
• 0 • written 14 months ago by
Henry
▴ 10
0
votes
0
replies
584
views
DiffBind: no peaks in DBA object
DiffBind
macs2
chipseq
14 months ago
yvonneh
• 0
0
votes
0
replies
393
views
How to create consensus peak sets for each group to use in DiffBind?
DiffBind
14 months ago
Ian D.
▴ 70
0
votes
9
replies
1.7k
views
More regions in union when increasing DBA$config$mergeOverlap
DiffBind
14 months ago • updated 8 months ago
Ian D.
▴ 70
3
votes
1
reply
771
views
Fold change calculation in Diffbind vs. DESEQ2?
DiffBind
ChIPSeqData
DESeq2
updated 14 months ago by
Michael Love
43k • written 14 months ago by
marcusn
▴ 10
0
votes
1
reply
1.2k
views
ATACseq merge peaks
DiffBind
updated 14 months ago by
ATpoint
★ 4.9k • written 14 months ago by
Shloka
• 0
0
votes
4
replies
777
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
14 months ago
lonn
• 0
0
votes
0
replies
425
views
Diffbind Error in socketConnection
DiffBind
Errorinsocketconnection
SpikeIn
14 months ago
Virangika
• 0
2
votes
2
replies
902
views
[DiffBind] Obtaining normalization factors
DiffBind
14 months ago
Henry
▴ 10
2
votes
2
replies
1.5k
views
[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind
Normalization
14 months ago
Henry
▴ 10
0
votes
0
replies
518
views
How to extract the coordinate of dba.plotPCA?
DiffBind
PCA
15 months ago
feather-W
• 0
0
votes
0
replies
548
views
PCA plot for normalized counts using Diffbind
DiffBind
PCAplot
15 months ago
Ankit
▴ 20
0
votes
0
replies
520
views
DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind
ATACSeq
15 months ago
Pierre Lindenbaum
▴ 10
0
votes
0
replies
501
views
Multifactor analysis in DiffBind
DiffBind
multifactoranalysis
15 months ago
erbrocato
• 0
0
votes
2
replies
798
views
Scores used for DiffBind's dba.plotHeatmap
DiffBind
15 months ago
Sam
▴ 10
0
votes
1
reply
630
views
Exact same results in Diffbind with different normalization methods
DiffBind
15 months ago
red_bricks
▴ 60
0
votes
1
reply
855
views
Extracting binding matrix with raw counts from DiffBind in ATAC-seq data not working
DiffBind
ATACSeq
17 months ago
isaromero8888
• 0
0
votes
0
replies
856
views
Which normalization should I do use for ATAC Seq using DiffBind
DiffBind
edgeR
ATACSeq
DESeq2
17 months ago
Jawahar
• 0
0
votes
0
replies
494
views
Parameter bSubControl with no effect in DiffBind dba.count?
bSubControl
ChIPSeq
DiffBind
17 months ago
frueher
• 0
0
votes
0
replies
470
views
Errror in running EdgeR based differential analysis in diffbind
DiffBind
17 months ago
Aswathy
• 0
0
votes
0
replies
685
views
Differential Binding of CUT&Tag peaks with normalization using scaling factor
DiffBind
CUT&Tag
18 months ago
Hai
• 0
0
votes
0
replies
588
views
ATACseq- Counts around TSS plot
DiffBind
ATACSeq
18 months ago
inna.gur
• 0
2
votes
2
replies
1.8k
views
DiffBind; Error: No sites have activity greater than filter value
DiffBind
updated 8 weeks ago by
etiennedanis
• 0 • written 22 months ago by
Mark
▴ 10
50 results • Page
1 of 1
Recent ...
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James W. MacDonald
68k
Comparing expression of two different genes is difficult because the gene lengths differ, and the signal may vary due to GC content. You mi…
Comment: RNA-seq: TPM batch effect correction
by
Samuel
• 0
As far as I know, DESeq2 works for differential expression analysis across conditions. That would be useful if i wanted to compare the gene…
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You have 6 samples and you want to model changes caused by both treatment and batch? I'm not sure you have the power for that. Programs l…
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