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Showing :
diffBind
•
reset
1
vote
16
replies
3.6k
views
Error: could not find function "dba"
software error
diffbind
dba
7.5 years ago
mmarins
• 0
0
votes
14
replies
2.4k
views
got 0 significant differential bound (DB)
diffbind
6.9 years ago
mforoo1
• 0
0
votes
7
replies
1.9k
views
DiffBind:Treatments + second factor
DiffBind
diffbind
updated 9.5 years ago by
Rory Stark
★ 5.2k • written 9.5 years ago by
sergio.espeso-gil
• 0
16
votes
9
replies
6.5k
views
Diffbind: edgeR or DESeq2 ?
diffbind
medip-seq
edger
deseq2
updated 6.5 years ago by
Rory Stark
★ 5.2k • written 8.1 years ago by
florian.noack
▴ 60
3
votes
6
replies
4.4k
views
Analyzing data without replicates using DiffBind
diffbind
bioconductor
differential binding analysis
without replicate
chipseq
6.4 years ago
Hesh
▴ 10
0
votes
9
replies
2.7k
views
Questions about DiffBind loaded peaks and re-count reads
DiffBind
3.4 years ago • updated 2.2 years ago
Tongjun
• 0
0
votes
6
replies
1.5k
views
DiffBind error with dba.count
diffbind
updated 6.0 years ago by
Rory Stark
★ 5.2k • written 6.1 years ago by
hhhcce
• 0
6
votes
8
replies
2.4k
views
Interaction with DESeq2 via DiffBind
diffbind
deseq2
interactions
updated 3.3 years ago by
pierre.marin
• 0 • written 6.5 years ago by
rbronste
▴ 60
1
vote
6
replies
5.8k
views
question about DiffBind
DiffBind
differential binding analysis
updated 8.6 years ago by
Rory Stark
★ 5.2k • written 8.7 years ago by
February
• 0
3
votes
5
replies
2.5k
views
Work with GRanges objects in DiffBind
diffbind
updated 7.8 years ago by
termanini
▴ 10 • written 8.7 years ago by
xulong.wang
• 0
1
vote
6
replies
2.6k
views
Diffbind EdgeR and DESeq2 normalization
diffbind
normalized counts
7.8 years ago
GFM
▴ 20
2
votes
6
replies
2.3k
views
SICER and Diffbind
Sicer
diffbind
9.1 years ago
sergio.espeso-gil
• 0
0
votes
4
replies
1.4k
views
DiffBind: Report differential sites by fold > & < 0
diffbind
updated 9.5 years ago by
Rory Stark
★ 5.2k • written 9.5 years ago by
sergio.espeso-gil
• 0
2
votes
4
replies
831
views
Extracting origin info from DB sites
DiffBind
updated 6.2 years ago by
Rory Stark
★ 5.2k • written 6.2 years ago by
michal.inbar
• 0
0
votes
6
replies
2.9k
views
DiffBind: Error in heights * sapply(called, function(x) x)
diffbind
dba.count
summits
updated 3.3 years ago by
Rory Stark
★ 5.2k • written 6.4 years ago by
zhaolin20042008
• 0
2
votes
7
replies
1.3k
views
Deferentially binding site is the same for all the samples
chip-seq
diffBind
sequence_analysis
updated 3.8 years ago by
Rory Stark
★ 5.2k • written 3.8 years ago by
Mar Mar
▴ 20
4
votes
11
replies
3.3k
views
How to get all possible comparisons in DiffBind
diffbind
updated 2.2 years ago by
Rory Stark
★ 5.2k • written 5.3 years ago by
bony.dekumar
▴ 10
0
votes
4
replies
2.6k
views
Diffbind - Problem with calling plotting functions after analysis "contrasts greater than the number of contrasts"
Diffbind
9.6 years ago
ben
• 0
1
vote
4
replies
1.3k
views
DiifBind version difference
diffbind
new version
updated 8.9 years ago by
Rory Stark
★ 5.2k • written 9.0 years ago by
pkra
• 0
0
votes
4
replies
1.8k
views
How to set the parameter "fragmentSize" in DiffBind and set parameter for paired-end CHIP-seq data?
diffbind
software error
updated 6.8 years ago by
Rory Stark
★ 5.2k • written 6.8 years ago by
xieyongjun93
• 0
1
vote
4
replies
2.0k
views
MAnorm output as DiffBind input.
MAnorm
diffbind
normalization
chipseq
updated 3.5 years ago by
Rory Stark
★ 5.2k • written 6.3 years ago by
ajeet
• 0
0
votes
4
replies
1.7k
views
consensus analysis and dba.count function
diffbind
consensus
7.3 years ago
pabla86
• 0
1
vote
5
replies
4.7k
views
DiffBind error
Alignment
DiffBind
Alignment
DiffBind
updated 11.3 years ago by
Rory Stark
★ 5.2k • written 11.3 years ago by
José Luis Lavín
▴ 280
0
votes
4
replies
2.3k
views
Error with Diffbind
diffbind
updated 8.6 years ago by
Rory Stark
★ 5.2k • written 8.6 years ago by
bdk
• 0
2
votes
4
replies
2.1k
views
Normalizing Cut&Tag peak data
Normalization
Peakdata
DiffBind
Cut&Tag
updated 19 months ago by
ATpoint
★ 4.1k • written 19 months ago by
bhandary.8590
▴ 20
4
votes
8
replies
2.2k
views
ChIPQC and/or Diffbind - retrieving normalized read counts for peaks from single sample
DiffBind
ChIPQC
8.2 years ago
JD
▴ 10
0
votes
8
replies
4.5k
views
DiffBind - Error in dba.count() when passing mask or peaks
diffbind
updated 8.0 years ago by
kmavrommatis
• 0 • written 8.2 years ago by
gaia.zaffaroni
• 0
1
vote
7
replies
1.4k
views
Conc_1 in differnet dba.report result is slightly different
DiffBind
updated 3.3 years ago by
Rory Stark
★ 5.2k • written 3.3 years ago by
Guandong Shang
▴ 40
0
votes
7
replies
1.1k
views
Issue in generating a new DBA object with custom counts
DiffBind
dbaobject
16 months ago • updated 15 months ago
francesco.gandolfi
• 0
0
votes
5
replies
1.5k
views
Change DiffBind correlation matrix scale
diffbind
scale
correlation matrix
8.5 years ago
eli7javasky
• 0
5
votes
7
replies
3.5k
views
What does dba.PCA in DiffBind exactly do?
diffbind
pca
updated 2.7 years ago by
Rory Stark
★ 5.2k • written 8.5 years ago by
renanec
▴ 20
0
votes
5
replies
2.1k
views
error loading dba in DiffBind
DiffBind
DiffBind
updated 10.9 years ago by
Lawson, Nathan
▴ 30 • written 10.9 years ago by
Gord Brown
▴ 650
5
votes
10
replies
1.8k
views
Learning DiffBind - some basic questions
DiffBind
updated 3.1 years ago by
Rory Stark
★ 5.2k • written 3.4 years ago by
Sam
▴ 10
3
votes
4
replies
2.4k
views
How to get the list of genes from DiffBind dba.report or dba.peakset
diffbind
updated 2.6 years ago by
mdidish
▴ 10 • written 5.8 years ago by
Bordiya
▴ 10
2
votes
6
replies
4.2k
views
DiffBind installation doesn't work
diffbind
go.db
8.9 years ago • updated 8.8 years ago
Gary
▴ 20
0
votes
6
replies
1.4k
views
Unexpected results in the dba.report output files
diffbind
updated 6.3 years ago by
ck15115
• 0 • written 6.5 years ago by
Silvia
• 0
0
votes
4
replies
1.1k
views
Plotting the peak counts for filtering
diffbind
updated 9.0 years ago by
Rory Stark
★ 5.2k • written 9.0 years ago by
mc.suciu
• 0
1
vote
4
replies
2.2k
views
DiffBind not accessible files in Example data
diffbind
updated 3.0 years ago by
Rory Stark
★ 5.2k • written 6.4 years ago by
bobfukkink
• 0
3
votes
12
replies
3.4k
views
Is it possible to change how DiffBind merge peaks?
DiffBind
ChIPseq
updated 2.7 years ago by
Rory Stark
★ 5.2k • written 4.6 years ago by
zhenfeng.liu1
▴ 20
1
vote
16
replies
4.8k
views
DiffBind Batch Effect
diffbind
atac
6.9 years ago
niu.shengyong
• 0
5
votes
17
replies
1.8k
views
DiffBind : More fragment sizes than libraries
diffbind
updated 6.9 years ago by
Rory Stark
★ 5.2k • written 6.9 years ago by
ZheFrench
▴ 50
4
votes
7
replies
2.5k
views
Diffbind dba.analyze Error in d$span : $ operator is invalid for atomic vectors
diffbind
updated 14 months ago by
xzpgocxx
• 0 • written 9.1 years ago by
danishm20
▴ 10
0
votes
5
replies
1.9k
views
ChIPseq diffbind merging peaks
diffbind
merging_peaks
7.2 years ago
veronique.storme
• 0
1
vote
8
replies
1.9k
views
Global reduction of epigenetic factors (regularized log transformation DESeq2) ~ Diffbind
deseq2
diffbind
updated 6.9 years ago by
Michael Love
41k • written 6.9 years ago by
JunLVI
▴ 40
2
votes
6
replies
3.4k
views
DiffBind: reading in peaksets generated by Homer2
diffbind
updated 9.0 years ago by
sergio.espeso-gil
• 0 • written 9.3 years ago by
iliya.lefterov
▴ 10
0
votes
3
replies
1.5k
views
DiffBind EdgeR vs DeSeq2 diff peak counts
diffbind
7.3 years ago
rbronste
▴ 60
4
votes
5
replies
1.8k
views
Multi-factor blocking in DiffBind
diffbind
differential binding analysis
multiple factor design
written 6.6 years ago by
jared.andrews07
▴ 30
0
votes
3
replies
1.5k
views
Change color of Diffbind's PCA and clustered heatmap plot()
DiffBind
plot
color
updated 4.3 years ago by
Rory Stark
★ 5.2k • written 4.5 years ago by
melnuesch
▴ 10
0
votes
2
replies
1.2k
views
Diffbind: overlapping + Venn diagram
diffbind
9.5 years ago • updated 9.3 years ago
sergio.espeso-gil
• 0
0
votes
7
replies
1.7k
views
DiffBind fails to derive consensus peaksets
software error
chipseq
diffbind
updated 9.0 years ago by
Gord Brown
▴ 650 • written 9.0 years ago by
Nicolas Delhomme
▴ 320
50 results • Page
1 of 1
Recent ...
Replies
Comment: Deseq2 and Normalization of RNA sequencing data
by
kcarey
• 0
Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …
Answer: NEED FOR NESSASORY HELP
by
Gordon Smyth
50k
Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…
Answer: Gene-by-sample covariates in limma
by
Gordon Smyth
50k
Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Gordon Smyth
50k
You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …
Comment: Once again a "Model matrix not full rank"
by
James W. MacDonald
65k
In that case both time and treatment are identical things, so choose one and go with it.
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
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