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Created An Answer That Has Been Accepted
Awarded 5048 times (see all awards). Earned by the
following contributors:
7 months, 3 weeks ago
Cambridge, UK
Answer: [Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Bla
1 year, 1 month ago
Cambridge, UK
Answer: DiffBind dba.analyze function doesn't have bSubControl option anymore?
1 year, 6 months ago
Cambridge, UK
Answer: Errors with DiffBind, Error in peaks[, pCol]/max(peaks[, pCol]) :
non-numeric
1 year, 7 months ago
Cambridge, UK
Answer: how diffbind count the reads of each peak in each sample?
1 year, 7 months ago
Cambridge, UK
Answer: Positive and negative value fold value in ATAC seq using DiffBind
1 year, 11 months ago
Cambridge, UK
Answer: RiP RLE normalisation using spike-in peaks in DiffBind for ChIP-seq
2 years, 2 months ago
Cambridge, UK
Answer: DiffBind: Error in if (res$config$bCorPlot) { : the condition has length > 1
2 years, 6 months ago
Cambridge, UK
Answer: DiffBind always reverts to default normalization
2 years, 10 months ago
Cambridge, UK
Answer: How to get 3/4 peak overlap in DiffBind?
2 years, 10 months ago
Cambridge, UK
Answer: Not able to replicated Diffbind example dataset.
3 years, 2 months ago
Cambridge, UK
Answer: Diffbind: differences between design vs no design (same comparison)?
3 years, 3 months ago
Cambridge, UK
Answer: DiffBind fold parameter vs. IfcThreshold in DESeq2
3 years, 3 months ago
Cambridge, UK
Answer: DiffBind (Error in if (DBA$config$parallelPackage))
3 years, 4 months ago
Cambridge, UK
Answer: how to construct a DBA object from count matrix
3 years, 5 months ago
Cambridge, UK
Answer: DiffBind Error in if (file.info(peaks)$size > 0) { : missing value where TRUE
3 years, 5 months ago
Cambridge, UK
Answer: DiffBind -- Error: No sites have activity greater than minMaxval
3 years, 6 months ago
Cambridge, UK
Answer: erorr in normalization with DiffBind: pv$binding[, colnum] <- pv$peaks[[i]]$RPKM
3 years, 6 months ago
Cambridge, UK
Answer: Retrieve loadings/eigenvalues for PCAs using DiffBind's dba.plotPCA
3 years, 8 months ago
Cambridge, UK
Answer: A mismatch between DiffBind's results and the same results retreieved as DESeq2
3 years, 8 months ago
Cambridge, UK
Answer: Error with dba.count(dbObj) in DiffBind
3 years, 9 months ago
Cambridge, UK
Answer: DiffBind analysis for ATAC-Seq error Error processing one or more read files
3 years, 9 months ago
Cambridge, UK
Answer: DiffBind analysis on ChIP-Seq qata and design matrix
3 years, 10 months ago
Cambridge, UK
Answer: dba.count() of DiffBind 3.0 does not have bSubControl parameter
3 years, 11 months ago
Cambridge, UK
Answer: Using DiffBind blacklists and greylists with results mapped to BDGP6
3 years, 12 months ago
Cambridge, UK
Answer: Normalization in DiffBind for Atac-seq
4 years, 1 month ago
Cambridge, UK
A: [dba.plotvenn] Can I move around the numbers in the diagram so that they fit ins
4 years, 4 months ago
Cambridge, UK
A: Cannot install DiffBind on R3.5 due to amap dependency
4 years, 4 months ago
Cambridge, UK
A: Deferentially binding site is the same for all the samples
4 years, 8 months ago
Cambridge, UK
A: Some confuse about the DBA_SCORE_TMM_READS_EFFECTIVE_CPM in DiffBind
5 years, 4 months ago
Cambridge, UK
A: diffBind: differentially bound sites are highly different between using EDGER an
5 years, 6 months ago
Cambridge, UK
A: DiffBind's MA plots for ChIP-seq - how to properly interpret normalization from
5 years, 9 months ago
Cambridge, UK
A: DiffBind for ATAC-seq -- bFullLibrarySize parameter
5 years, 10 months ago
Cambridge, UK
A: Error in estimateDispersionsFit(object, fitType = fitType, quiet = quiet) on usi
5 years, 10 months ago
Cambridge, UK
DiffBind differential binding normalization with different levels of binding
6 years, 1 month ago
Cambridge, UK
A: Differential analysis of multiple samples with different time points
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