Showing : DiffBind • reset
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108
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Diffbind: Cut&Run: E-coli spike-in
Normalization DiffBind
16 days ago kim • 0
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0
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96
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diffbind covariates
DiffBind ATACSeq
updated 24 days ago by 42k • written 25 days ago by ▴ 220
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2
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419
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DiffBind dba.report discrepancy
DiffBind
4 weeks ago • updated 28 days ago aelbassiouny • 0
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84
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DiffBind subset replicates
DiffBind
5 weeks ago Haiping • 0
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134
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Background normalization of Diffbind dba.normalize
Normalization DiffBind
6 weeks ago Young Boqin • 0
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0
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197
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Trying to understand basic DiffBind usage
ChIPSeq DiffBind
9 weeks ago Alejandro • 0
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2
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336
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DiffBind for MBD-seq
MBD-seq DiffBind
12 weeks ago Marianna ▴ 20
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226
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DiffBind - observation that the default union overlap is actually a gap of 1 bp
DiffBind
3 months ago Ian D. ▴ 70
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1
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264
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DiffBind remove Unplace Chromosome (chrUn)
DiffBind
3 months ago mdidish ▴ 10
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218
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DiffBind dba.plotprofile y-axis range
DiffBind
3 months ago Tara • 0
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8
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693
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DiffBind full library size not reliable
DiffBind Reads MACS2 FullLibSize
updated 3 months ago by ★ 5.2k • written 3 months ago by ▴ 20
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3
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441
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Create merged ChIP heatmap across conditions
DiffBind profileplyr
updated 4 months ago by ★ 5.2k • written 4 months ago by • 0
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338
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Blacklist regions on DBA object (diffbind)
DiffBind chipseq
4 months ago gamma.jian ▴ 10
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2
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409
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Trouble reading samplesheet in with diffbind to create dba
DiffBind DifferentialPeakCalling
5 months ago Mallory • 0
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238
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Difference in Contrast in DiffBind
DiffBind
6 months ago user_bioinfo • 0
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0
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278
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need help with Diffbind multiple groups
DiffBind ChIPSeqData
6 months ago Dinesh • 0
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1
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508
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dba.plotProfile() plotting and interpretation
DiffBind
updated 15 days ago by • 0 • written 6 months ago by ▴ 10
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335
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DiffBind: no peaks in DBA object
DiffBind macs2 chipseq
6 months ago yvonneh • 0
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271
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How to create consensus peak sets for each group to use in DiffBind?
DiffBind
6 months ago Ian D. ▴ 70
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9
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1.2k
views
More regions in union when increasing DBA$config$mergeOverlap
DiffBind
6 months ago • updated 4 weeks ago Ian D. ▴ 70
1
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1
reply
423
views
Fold change calculation in Diffbind vs. DESEQ2?
DiffBind ChIPSeqData DESeq2
updated 6 months ago by 42k • written 6 months ago by • 0
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1
reply
675
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ATACseq merge peaks
DiffBind
updated 6 months ago by ★ 4.5k • written 7 months ago by • 0
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4
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539
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Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind DESeq2 ATACSeq
7 months ago lonn • 0
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262
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Diffbind Error in socketConnection
DiffBind Errorinsocketconnection SpikeIn
7 months ago Virangika • 0
2
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2
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571
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[DiffBind] Obtaining normalization factors
DiffBind
7 months ago Henry ▴ 10
2
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2
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896
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[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind Normalization
7 months ago Henry ▴ 10
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0
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363
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How to extract the coordinate of dba.plotPCA?
DiffBind PCA
7 months ago feather-W • 0
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355
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PCA plot for normalized counts using Diffbind
DiffBind PCAplot
7 months ago Ankit ▴ 20
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0
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324
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DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind ATACSeq
7 months ago Pierre Lindenbaum ▴ 10
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0
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349
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Multifactor analysis in DiffBind
DiffBind multifactoranalysis
8 months ago erbrocato • 0
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2
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592
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Scores used for DiffBind's dba.plotHeatmap
DiffBind
8 months ago Sam ▴ 10
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1
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436
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Exact same results in Diffbind with different normalization methods
DiffBind
8 months ago red_bricks ▴ 60
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1
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572
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Extracting binding matrix with raw counts from DiffBind in ATAC-seq data not working
DiffBind ATACSeq
10 months ago isaromero8888 • 0
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0
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579
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Which normalization should I do use for ATAC Seq using DiffBind
DiffBind edgeR ATACSeq DESeq2
10 months ago Jawahar • 0
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0
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352
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Parameter bSubControl with no effect in DiffBind dba.count?
bSubControl ChIPSeq DiffBind
10 months ago frueher • 0
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0
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319
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Errror in running EdgeR based differential analysis in diffbind
DiffBind
10 months ago Aswathy • 0
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0
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483
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Differential Binding of CUT&Tag peaks with normalization using scaling factor
DiffBind CUT&Tag
10 months ago Hai • 0
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0
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435
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ATACseq- Counts around TSS plot
DiffBind ATACSeq
10 months ago inna.gur • 0
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1
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1.2k
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DiffBind; Error: No sites have activity greater than filter value
DiffBind
updated 10 months ago by • 0 • written 15 months ago by • 0
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2
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606
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In DiffBind, dba.blacklist changes the minOverlap parameter
DiffBind
written 11 months ago by ▴ 10
1
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2
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535
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Inconsistent results in DiffBind
DiffBind
11 months ago Sam ▴ 10
1
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1
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584
views
DiffBind getting Fold values of near 0
DiffBind DESeq2
updated 11 months ago by ★ 4.5k • written 11 months ago by • 0
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0
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613
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Calculation of ChIP-seq normalization factors with non-conventional spike-in assumptions
csaw ChIPseq DiffBind
12 months ago jared.andrews07 ▴ 30
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0
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621
views
DiffBind dba.count() crash/can't finish problems
dba.count DiffBind ATACSeq
updated 13 months ago by 67k • written 13 months ago by • 0
2
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4
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1.5k
views
DiffBind returns different grey lists every time I run dba.blacklist even if I set seed.
DiffBind
updated 13 months ago by ▴ 10 • written 13 months ago by • 0
2
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2
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655
views
DiffBind dba.analyze function doesn't have bSubControl option anymore?
DiffBind
13 months ago r.murakami • 0
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1
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751
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DiffBind - how to prep the sample matrix when multiple bam files are used by MACS2's -t and -c param?
DiffBind chipseq
updated 13 months ago by 67k • written 13 months ago by • 0
3
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7
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1.3k
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Genes in open chromatin region
ChIPpeakAnno DiffBind
written 14 months ago by ▴ 20
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3
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890
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diffbind analyze for wheat
DiffBind
updated 8 months ago by • 0 • written 14 months ago by • 0
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1
reply
811
views
Samples have been merged or lost during counting. Check for duplicate bam files. DiffBind dbacount
DiffBind
15 months ago Mark • 0
50 results • Page 1 of 1
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Answer: Unlocking Potential: NURS FPX Strategies and Insights by efsane_kral2000 • 0
https://diendannhansu.com/threads/hayal-sohbet-odalari.667004/ https://forum.realdigital.org/u/serkan https://animefagos.com/miembros/ser…
Comment: Unlocking Potential: NURS FPX Strategies and Insights by efsane_kral2000 • 0
https://www.hayalsohbet.net https://www.yerlichat.com https://www.yerlichat.net https://www.mavisim.net https://www.hayalchat.com http…
Comment: Is it recommended to analyze different tissues together when using edgeR by Gordon Smyth 51k
Just plot the samples with plotMDS(). Alternatively you would use `voomLmFit()` with `sample.weights=TRUE` or `var.group=tissue`. In princ…
Comment: Handling Epic Array Data by Melisa Tecik • 0
Thanks a lot for the help. You saved my day
Answer: Differene between the Wald and LRT test for time-series gene expression data by James W. MacDonald 67k
The advantage to using the LRT is that it's an omnibus test that tells you if there are changes at any time point. If you have lots of time…
Votes
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
Answer: Allele frequencies for ALL alleles of one SNP ?
Answer: Is it recommended to analyze different tissues together when using edgeR
Answer: Is it recommended to analyze different tissues together when using edgeR
Answer: Using Affymetrix Custom Array
Awards • All
Popular Question to Fred Hutch (Recruiting) ▴ 40
Scholar to Gordon Smyth 51k
Popular Question to chase.mateusiak • 0
Scholar to James W. MacDonald 67k
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