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diffbind
•
reset
0
votes
2
replies
214
views
ATACseq rudimentary questions
ATACSeq
DiffBind
5 weeks ago
4747
• 0
1
vote
11
replies
7.8k
views
DiffBind - question on the use of filtered or unfiltered input data
DiffBind
written 2.8 years ago by
Oscar
▴ 10
0
votes
1
reply
324
views
DiffBind plot.profile error
BiocParallel
DiffBind
updated 19 hours ago by
a2sahaaaq2c
• 0 • written 8 months ago by
this_is_me_trying
• 0
0
votes
0
replies
1.1k
views
Diffbind Analysis gives error during profile plotting stage. Error in value[[3L]](cond) : profileplyr error: Error: BiocParallel errors 1 remote…
chipseq
profileplyr
DiffBind
9 months ago
Muhammad
• 0
0
votes
0
replies
431
views
I want my overlapping peaks to stop merging by default doing read counting (using DiffBind in R-studio)
peakoverlap
mergingpeaks
ChIPseq
DiffBind
10 months ago
atlanta
• 0
0
votes
4
replies
2.5k
views
DiffBind can't find a DAR
dar
ATACSeq
DiffBind
10 months ago • updated 9 months ago
Mengjun
• 0
0
votes
0
replies
295
views
DiffBind multi-tissue comparison
DiffBind
10 months ago
lryrainche
• 0
1
vote
8
replies
2.9k
views
[ChIP-seq] DESeq2 on counts matrix from union set of called peaks
csaw
ChIPseq
DESeq2
DiffBind
11 months ago • updated 10 months ago
Luca
• 0
0
votes
0
replies
417
views
DiffBind recommendation on using IgG bams
peakcalling
DiffBind
11 months ago
Harish
• 0
0
votes
4
replies
1.5k
views
DiffBind edgeR normalization --- why are the normalization factors all equal to 1?
edgeR
DiffBind
updated 11 months ago by
Harry
• 0 • written 11 months ago by
tifaGis
• 0
0
votes
1
reply
505
views
building samplesheet and plot profile
DiffBind
12 months ago
yf
• 0
0
votes
5
replies
1.0k
views
Diffbind interpretation of data - fold change
DiffBind
13 months ago
Vera
• 0
0
votes
0
replies
761
views
Diffbind: Cut&Run: E-coli spike-in
Normalization
DiffBind
15 months ago
kim
• 0
0
votes
0
replies
474
views
diffbind covariates
DiffBind
ATACSeq
updated 15 months ago by
Michael Love
43k • written 15 months ago by
Alpesh Querer
▴ 220
0
votes
2
replies
1.1k
views
DiffBind dba.report discrepancy
DiffBind
15 months ago
aelbassiouny
• 0
0
votes
0
replies
386
views
DiffBind subset replicates
DiffBind
15 months ago
Haiping
• 0
0
votes
0
replies
730
views
Background normalization of Diffbind dba.normalize
Normalization
DiffBind
16 months ago
Young Boqin
• 0
0
votes
0
replies
569
views
Trying to understand basic DiffBind usage
ChIPSeq
DiffBind
16 months ago
Alejandro
• 0
0
votes
2
replies
698
views
DiffBind for MBD-seq
MBD-seq
DiffBind
17 months ago
Marianna
▴ 20
0
votes
1
reply
787
views
DiffBind - observation that the default union overlap is actually a gap of 1 bp
DiffBind
17 months ago • updated 12 months ago
Ian D.
▴ 70
0
votes
1
reply
683
views
DiffBind remove Unplace Chromosome (chrUn)
DiffBind
18 months ago
mdidish
▴ 10
0
votes
0
replies
570
views
DiffBind dba.plotprofile y-axis range
DiffBind
18 months ago
Tara
• 0
0
votes
8
replies
1.5k
views
DiffBind full library size not reliable
DiffBind
Reads
MACS2
FullLibSize
updated 18 months ago by
Rory Stark
★ 5.3k • written 18 months ago by
Marianna
▴ 20
1
vote
3
replies
1.0k
views
Create merged ChIP heatmap across conditions
DiffBind
profileplyr
updated 18 months ago by
Rory Stark
★ 5.3k • written 18 months ago by
jesswhitts
• 0
0
votes
0
replies
890
views
Blacklist regions on DBA object (diffbind)
DiffBind
chipseq
19 months ago
gamma.jian
▴ 10
0
votes
2
replies
1.1k
views
Trouble reading samplesheet in with diffbind to create dba
DiffBind
DifferentialPeakCalling
20 months ago
Mallory
• 0
0
votes
0
replies
574
views
Difference in Contrast in DiffBind
DiffBind
21 months ago
user_bioinfo
• 0
0
votes
0
replies
565
views
need help with Diffbind multiple groups
DiffBind
ChIPSeqData
21 months ago
Dinesh
• 0
0
votes
1
reply
1.1k
views
dba.plotProfile() plotting and interpretation
DiffBind
updated 15 months ago by
B.N
• 0 • written 21 months ago by
Henry
▴ 10
0
votes
0
replies
885
views
DiffBind: no peaks in DBA object
DiffBind
macs2
chipseq
21 months ago
yvonneh
• 0
0
votes
0
replies
528
views
How to create consensus peak sets for each group to use in DiffBind?
DiffBind
21 months ago
Ian D.
▴ 70
0
votes
9
replies
2.0k
views
More regions in union when increasing DBA$config$mergeOverlap
DiffBind
21 months ago • updated 15 months ago
Ian D.
▴ 70
3
votes
1
reply
1000
views
Fold change calculation in Diffbind vs. DESEQ2?
DiffBind
ChIPSeqData
DESeq2
updated 21 months ago by
Michael Love
43k • written 21 months ago by
marcusn
▴ 10
0
votes
1
reply
1.6k
views
ATACseq merge peaks
DiffBind
updated 21 months ago by
ATpoint
★ 5.0k • written 21 months ago by
Shloka
• 0
0
votes
4
replies
1.0k
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
22 months ago • updated 21 months ago
lonn
• 0
0
votes
0
replies
578
views
Diffbind Error in socketConnection
DiffBind
Errorinsocketconnection
SpikeIn
22 months ago
Virangika
• 0
2
votes
2
replies
1.2k
views
[DiffBind] Obtaining normalization factors
DiffBind
22 months ago
Henry
▴ 10
2
votes
2
replies
2.0k
views
[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind
Normalization
22 months ago
Henry
▴ 10
0
votes
0
replies
690
views
How to extract the coordinate of dba.plotPCA?
DiffBind
PCA
22 months ago
feather-W
• 0
0
votes
0
replies
695
views
PCA plot for normalized counts using Diffbind
DiffBind
PCAplot
22 months ago
Ankit
▴ 20
0
votes
0
replies
706
views
DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind
ATACSeq
22 months ago
Pierre Lindenbaum
▴ 10
0
votes
0
replies
627
views
Multifactor analysis in DiffBind
DiffBind
multifactoranalysis
22 months ago
erbrocato
• 0
0
votes
2
replies
1.0k
views
Scores used for DiffBind's dba.plotHeatmap
DiffBind
23 months ago
Sam
▴ 10
0
votes
1
reply
854
views
Exact same results in Diffbind with different normalization methods
DiffBind
23 months ago
red_bricks
▴ 60
0
votes
1
reply
1.2k
views
Extracting binding matrix with raw counts from DiffBind in ATAC-seq data not working
DiffBind
ATACSeq
2.0 years ago
isaromero8888
• 0
0
votes
0
replies
1.0k
views
Which normalization should I do use for ATAC Seq using DiffBind
DiffBind
edgeR
ATACSeq
DESeq2
2.0 years ago
Jawahar
• 0
0
votes
0
replies
665
views
Parameter bSubControl with no effect in DiffBind dba.count?
bSubControl
ChIPSeq
DiffBind
2.1 years ago
frueher
• 0
0
votes
0
replies
593
views
Errror in running EdgeR based differential analysis in diffbind
DiffBind
2.1 years ago
Aswathy
• 0
0
votes
0
replies
885
views
Differential Binding of CUT&Tag peaks with normalization using scaling factor
DiffBind
CUT&Tag
2.1 years ago
Hai
• 0
0
votes
0
replies
735
views
ATACseq- Counts around TSS plot
DiffBind
ATACSeq
2.1 years ago
inna.gur
• 0
679 results • Page
1 of 14
Recent ...
Replies
Comment: Postdoctoral Fellow (Computational Biology / Bioinformatics) - Neuroepigenetics
by
mudasarnaeem2020
• 0
Promoting UDISE+ Features on Social Media to Increase Awareness https://udisseplus.com/[enter link description here][1] [1]: https://ud…
Comment: DiffBind plot.profile error
by
a2sahaaaq2c
• 0
To resolve technical errors like installation failures or login issues, first ensure your device allows in the security settings and that…
Comment: soGGi error
by
shepherl
4.3k
We have tried to contact the soGGi maintainer to have them update the package to the newer version of gglot2 but they have so far been unre…
Comment: using limma trend workflow in CAMERA
by
Gordon Smyth
53k
No, `trend.var=TRUE` and `trend=TRUE` are not needed in any voom pipeline, because the trend is already incorporated into the voom weights.
Comment: Questions about bacon QC and correction on EWAS results
by
Tikaaa2sahaaaq2c
• 0
In the world of mobile games, the 88ef game download has gained traction for its performance driven design [free download][1], similar to …
Votes
Answer: DiffBind differential analysis
Answer: Limma-voom sample weights and impact on DEG numbers
C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
Comment: using limma trend workflow in CAMERA
C: z-score with DESeq2?
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