Showing : DiffBind • reset
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DiffBind: GreyListChIP error: Error: $ operator is invalid for atomic vectors
DiffBind
5 days ago millerh1 • 0
3
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9
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1.2k
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DiffBind GreyListChIP error: Error: BiocParallel errors
DiffBind
updated 6 days ago by • 0 • written 11 months ago by ▴ 10
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2
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841
views
DiffBind bUseSummarizeOverlaps error - the rownames and colnames of the supplied assay(s) must be NULL or identical to those of the SummarizedExper…
DiffBind ChIPSeqData
updated 6 days ago by • 0 • written 7 months ago by • 0
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0
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29
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diffbind dba.report
diffbind
6 days ago jonathanho1989 • 0
0
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0
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44
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Diffbind analysis of ATAC-seq data
ATACSeq DiffBind
8 days ago • updated 7 days ago young • 0
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49
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diffbind dba.count error
peakfiles diffbind HMMRATAC
15 days ago jonathanho1989 • 0
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0
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50
views
Diffbind not calling sites as differentially bound
DiffBind
19 days ago ipsc-jl • 0
5
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8
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760
views
how to construct a DBA object from count matrix
ChIPSeq ATACSeq differentially_occupied DiffBind
updated 19 days ago by ▴ 20 • written 11 months ago by ▴ 30
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1
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101
views
Diffbind: different results on the same sample depending on contrast parameters
DifferentialExpression DiffBind
updated 21 days ago by ★ 4.4k • written 5 weeks ago by • 0
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0
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63
views
How to set $control.subtract to FALSE in DiffBind?
DiffBind
4 weeks ago ksong ▴ 10
2
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3
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190
views
DiffBind always reverts to default normalization
ATACSeq Normalization DiffBind
9 weeks ago • updated 4 weeks ago bers.anthrope • 0
2
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5
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173
views
Diffbind dba$binding slot finding Chr21 for an MM10 dataset
DiffBind
updated 5 weeks ago by • 0 • written 6 weeks ago by • 0
0
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3
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149
views
DiffBind: 0 consensus peaks for dba.peakset: New bug / undocumented change introduced between version 2.14 and 3.4.11
DiffBind
updated 6 weeks ago by ★ 4.4k • written 6 weeks ago by • 0
0
votes
3
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129
views
DiffBind on static peak set for all samples
ChIPSeq DiffBind
updated 6 weeks ago by ★ 4.4k • written 6 weeks ago by • 0
2
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7
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530
views
can the counts extracted from Diffbind be used to analysis in Deseq2 as the RNAseq?
deseq2 diffbind
updated 6 weeks ago by ★ 4.4k • written 22 months ago by • 0
9
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6
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2.4k
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How to select summit size for histone ChiP-Seq in Diffbind
Diffbind Histone Chip-Seq Summit size
updated 6 weeks ago by ★ 4.4k • written 4.8 years ago by ▴ 40
0
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1
reply
173
views
DiffBind contrast design - pairwise with independent filtering
DiffBind
updated 7 weeks ago by • 0 • written 3 months ago by • 0
0
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1
reply
175
views
Input peak set for DiffBind should be all peaks or FDR filtered?
ChIPSeq DiffBind
updated 11 weeks ago by ★ 4.4k • written 3 months ago by • 0
0
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0
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105
views
DiffBind does not load samples
DiffBind
12 weeks ago nw416 • 0
3
votes
5
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672
views
Retrieve loadings/eigenvalues for PCAs using DiffBind's dba.plotPCA
DiffBind dba.plotPCA
updated 12 weeks ago by ★ 4.4k • written 13 months ago by ▴ 10
1
vote
1
reply
195
views
DiffBind drop out some peaks
DiffBind
updated 12 weeks ago by ★ 4.4k • written 3 months ago by • 0
0
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0
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106
views
Creating a consensus peakset in DiffBind for all the conditions of an experiment
DiffBind
12 weeks ago Sam ▴ 10
1
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2
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275
views
BiocParallel error when running DiffBind
BiocParallel BiocPa DiffBind
updated 12 weeks ago by 25k • written 3 months ago by ▴ 10
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0
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126
views
DiffBind error
DiffBind DifferentialPeakCalling
3 months ago Amandeep • 0
0
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9
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1.1k
views
Questions about DiffBind loaded peaks and re-count reads
DiffBind
19 months ago • updated 4 months ago Tongjun • 0
5
votes
6
replies
368
views
How to get 3/4 peak overlap in DiffBind?
DiffBind
4 months ago Krista • 0
3
votes
11
replies
1.5k
views
How to get all possible comparisons in DiffBind
diffbind
updated 4 months ago by ★ 4.4k • written 3.5 years ago by • 0
0
votes
2
replies
370
views
dba.count() error when re-centering peaks
DiffBind
4 months ago Mark • 0
0
votes
2
replies
213
views
`dbs.all` object in the vignette
DiffBind
5 months ago • updated 4 months ago Mark • 0
1
vote
6
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587
views
dba.count error
DiffBind
updated 4 months ago by ★ 4.4k • written 5 months ago by ▴ 10
1
vote
6
replies
483
views
DiffBind dba.count Error in if (sum(tokeep) < length(tokeep))
DiffBind dba.count
updated 5 months ago by ★ 4.4k • written 5 months ago by • 0
0
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1
reply
129
views
DiffBind issue: zero values for all peaks in one chromosome
DiffBind
updated 5 months ago by ★ 4.4k • written 5 months ago by • 0
8
votes
20
replies
2.0k
views
Using DiffBind blacklists and greylists with results mapped to BDGP6
DiffBind
updated 5 months ago by ★ 4.4k • written 18 months ago by ▴ 10
1
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10
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577
views
DiffBind: Values of Called1 and Called2 do not appear to coincide with input peaks
DiffBind
updated 5 months ago by ★ 4.4k • written 5 months ago by • 0
2
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3
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285
views
Not able to replicated Diffbind example dataset.
DiffBind
5 months ago Ayyappa ▴ 10
0
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0
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122
views
Not able to replicated Diffbind example dataset.
DiffBind
5 months ago Ayyappa ▴ 10
0
votes
1
reply
351
views
DiffBind: dba.plotProfile(profiles)
DiffBind
updated 6 months ago by • 0 • written 6 months ago by • 0
1
vote
1
reply
270
views
DiffBind scoreCol value question
DiffBind ChIPSeq chipseq
updated 6 months ago by ★ 4.4k • written 6 months ago by • 0
3
votes
4
replies
447
views
dba.contrast in DiffBind
v3.4.0 DiffBind
updated 6 months ago by ★ 4.4k • written 6 months ago by • 0
0
votes
3
replies
369
views
DiifBind_DBA_report
DiffBind
updated 6 months ago by ★ 4.4k • written 9 months ago by ▴ 90
3
votes
4
replies
563
views
DiffBind (Error in if (DBA$config$parallelPackage))
parallel R DiffBind
updated 6 months ago by ★ 4.4k • written 10 months ago by • 0
0
votes
3
replies
778
views
DiffBind minOverlap parameter
DiffBind minOverlap consensus peakset Job
updated 6 months ago by ★ 4.4k • written 2.7 years ago by • 0
0
votes
1
reply
252
views
diffbind binding affinity matrix
diffbind DiffBind
updated 6 months ago by ★ 4.4k • written 7 months ago by • 0
1
vote
2
replies
342
views
How to include/show/add correction factors/numbers to the Diffbind heat map tiles
DiffBind
updated 7 months ago by ▴ 40 • written 7 months ago by • 0
3
votes
4
replies
1.3k
views
How to get the list of genes from DiffBind dba.report or dba.peakset
diffbind
updated 8 months ago by ▴ 10 • written 3.9 years ago by ▴ 10
1
vote
2
replies
307
views
DiffBind in Bioconda
DiffBind Bioconda Versions
9 months ago • updated 8 months ago Riba Michela ▴ 90
0
votes
0
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212
views
DiffBind spike-in normalisation with varying amounts of spike-in chromatin
DiffBind ChIPSeq Normalization SpikeIn
8 months ago Drew • 0
0
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0
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226
views
DiffBind dba.counts memory issue
DiffBind
9 months ago rreese2 • 0
0
votes
2
replies
344
views
how to select specific genes from heatmap of differentially accessible regions of ATAC-seq in DiffBind
DiffBind
updated 9 months ago by ★ 4.4k • written 9 months ago by • 0
0
votes
2
replies
537
views
Diffbind dba.plotProfile attempt to select less than one element in OneIndex
DiffBind
9 months ago bhanratt • 0
50 results • Page 1 of 1
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Comment: FeaturePlot in scater by Guandong Shang ▴ 20
Thanks, this is what I want!
Comment: Using Age or other numerical variable to model expression in deseq2 by James W. MacDonald 60k
If you converted to a factor, the intercept is the reference level (you have to look at `levels(age)` to know what the reference is). If yo…
Answer: How fix lines of dendrogram that overlap in the column portion of a heatmap? by James W. MacDonald 60k
You won't be able to 'fix' that without changing the width to something huge, at which time the usefulness will have been reduced quite a b…
Comment: How can i fix this problem in R by ATpoint ★ 1.3k
That means you have a typo. Please copy and paste the command as-is.
Answer: FeaturePlot in scater by alan.ocallaghan ▴ 100
Something like this? ``` r library("scater") example_sce <- mockSCE() example_sce <- logNormCounts(example_sce) example_sce <- r…
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Answer: FeaturePlot in scater
Answer: FeaturePlot in scater
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Answer: How to use combat in order to remove batch effects?
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