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Comment: Comment: What does dba.PCA in DiffBind exactly do?
3.3 years ago Rory Stark ★ 5.2k
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Answer: Answer: issue with DiffBind dba.count
3.3 years ago Rory Stark ★ 5.2k
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Comment: Comment: Is it possible to change how DiffBind merge peaks?
3.3 years ago Rory Stark ★ 5.2k
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4.2k
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Comment: Comment: Is it possible to change how DiffBind merge peaks?
3.3 years ago Rory Stark ★ 5.2k
2
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4.2k
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Answer: Answer: Is it possible to change how DiffBind merge peaks?
3.3 years ago Rory Stark ★ 5.2k
1
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4.2k
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Comment: Comment: Is it possible to change how DiffBind merge peaks?
3.3 years ago Rory Stark ★ 5.2k
0
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7.3k
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Answer: Answer: DiffBind GreyListChIP error: Error: BiocParallel errors
3.3 years ago Rory Stark ★ 5.2k
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2.6k
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Comment: Comment: CUT&Tag differential peak analysis using Diffbind, with pre-calculated normaliza
3.3 years ago Rory Stark ★ 5.2k
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1
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1.3k
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Answer: Answer: DiffBind
3.3 years ago Rory Stark ★ 5.2k
1
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1.9k
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Answer: Answer: Using block and design together in Diffbind 3.0?
3.4 years ago Rory Stark ★ 5.2k
1
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Answer: Answer: how to construct a DBA object from count matrix
3.4 years ago Rory Stark ★ 5.2k
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Answer: Answer: DiffBind giving different results from dba.report() and dba.analyze(..., bRetrie
3.4 years ago Rory Stark ★ 5.2k
1
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1
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881
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Answer: Answer: Output of normalizing a dba object with DBA_DESEQ2,normalize = DBA_NORM_RLE in
3.4 years ago Rory Stark ★ 5.2k
4
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2
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2.6k
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Answer: Answer: how to construct a DBA object from count matrix
3.4 years ago Rory Stark ★ 5.2k
1
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951
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Answer: Answer: DiffBind dba.report(): Question about DBA_ALL_METHODS
3.4 years ago Rory Stark ★ 5.2k
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2.4k
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Comment: Comment: DiffBind -- Error: No sites have activity greater than minMaxval
3.4 years ago Rory Stark ★ 5.2k
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2.4k
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Comment: Comment: DiffBind -- Error: No sites have activity greater than minMaxval
3.4 years ago Rory Stark ★ 5.2k
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2.4k
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Comment: Comment: DiffBind -- Error: No sites have activity greater than minMaxval
3.4 years ago Rory Stark ★ 5.2k
1
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682
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Answer: Answer: How are greylists derived in DiffBind
3.4 years ago Rory Stark ★ 5.2k
2
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5.1k
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Answer: Answer: DiffBind Error in if (file.info(peaks)$size > 0) { : missing value where TRUE
3.4 years ago Rory Stark ★ 5.2k
1
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1.0k
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Answer: Answer: DiffBind normalisation factor retrieval
3.4 years ago Rory Stark ★ 5.2k
1
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1
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1.9k
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Comment: Comment: Binding matrix created by DiffBind
3.5 years ago Rory Stark ★ 5.2k
1
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5.5k
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Answer: Answer: How to select summit size for histone ChiP-Seq in Diffbind
3.5 years ago Rory Stark ★ 5.2k
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1.9k
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Answer: Answer: Binding matrix created by DiffBind
3.5 years ago Rory Stark ★ 5.2k
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872
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Answer: Answer: Hard coding in DiffBind DBA.R line 968
3.5 years ago Rory Stark ★ 5.2k
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971
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Answer: Answer: DiffBind confusions
3.5 years ago Rory Stark ★ 5.2k
2
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2
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2.4k
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Answer: Answer: DiffBind -- Error: No sites have activity greater than minMaxval
3.5 years ago • updated 3.4 years ago Rory Stark ★ 5.2k
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Comment: Comment: Does DiffBind correctly designate peaks with very small fold-change to be statis
3.5 years ago Rory Stark ★ 5.2k
2
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5
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4.4k
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News: New in DiffBind 3.2: dba.plotProfile() - Peak profiles and profile heatmaps
profileplyr ATACSeq DiffBind ComplexHeatmap ChIPSeq
updated 24 months ago by • 0 • written 3.5 years ago by ★ 5.2k
2
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1
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1.2k
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Answer: Answer: erorr in normalization with DiffBind: pv$binding[, colnum] <- pv$peaks[[i]]$RPKM
3.5 years ago Rory Stark ★ 5.2k
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1.2k
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Comment: Comment: erorr in normalization with DiffBind: pv$binding[, colnum] <- pv$peaks[[i]]$RPKM
3.5 years ago Rory Stark ★ 5.2k
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1.2k
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Comment: Comment: erorr in normalization with DiffBind: pv$binding[, colnum] <- pv$peaks[[i]]$RPKM
3.5 years ago Rory Stark ★ 5.2k
0
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1.6k
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Comment: Comment: DiffBind
3.6 years ago Rory Stark ★ 5.2k
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2.6k
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Comment: Comment: Retrieve loadings/eigenvalues for PCAs using DiffBind's dba.plotPCA
3.6 years ago Rory Stark ★ 5.2k
2
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2
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2.6k
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Answer: Answer: Retrieve loadings/eigenvalues for PCAs using DiffBind's dba.plotPCA
3.6 years ago Rory Stark ★ 5.2k
0
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2.4k
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Answer: Answer: DiffBind not accessible files in Example data
3.6 years ago Rory Stark ★ 5.2k
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1
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1.6k
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Answer: Answer: DiffBind
3.6 years ago Rory Stark ★ 5.2k
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1.0k
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Comment: Comment: DiffBind reporting error
3.6 years ago Rory Stark ★ 5.2k
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0
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4.2k
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Comment: Comment: Is it possible to change how DiffBind merge peaks?
3.6 years ago Rory Stark ★ 5.2k
0
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0
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2.9k
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Comment: Comment: Counting reads in fixed width peaks with DiffBind::dba.count without re-centerin
3.6 years ago Rory Stark ★ 5.2k
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4.2k
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Answer: Answer: Is it possible to change how DiffBind merge peaks?
3.6 years ago Rory Stark ★ 5.2k
3
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0
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1.8k
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Answer: Answer: How to retrieve peak summit from DiffBind peaks
3.6 years ago Rory Stark ★ 5.2k
1
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3.8k
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Comment: Comment: DiffBind how to retrieve normalized count matrix of ATAC-seq data
3.7 years ago Rory Stark ★ 5.2k
2
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1
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1.4k
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Answer: Answer: DiffBind does not use DESeq2 MLE estimation of fold change
3.7 years ago Rory Stark ★ 5.2k
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1.2k
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Comment: Comment: How sensitive is DiffBind to Deseq2 assumptions ?
3.7 years ago Rory Stark ★ 5.2k
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2.4k
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Comment: Comment: DiffBind: dba.contrast for interaction terms
3.7 years ago Rory Stark ★ 5.2k
1
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2
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2.6k
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Answer: Answer: CUT&Tag differential peak analysis using Diffbind, with pre-calculated normaliza
3.7 years ago Rory Stark ★ 5.2k
2
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0
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1.4k
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Answer: Answer: A mismatch between DiffBind's results and the same results retreieved as DESeq2
3.7 years ago Rory Stark ★ 5.2k
1
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1
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3.8k
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Comment: Comment: DiffBind how to retrieve normalized count matrix of ATAC-seq data
3.7 years ago Rory Stark ★ 5.2k
0
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2
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1.5k
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Answer: Answer: DiffBind DEseq
3.7 years ago Rory Stark ★ 5.2k
931 results • Page 5 of 19
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