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0
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1
answer
54
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1
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bamCompare the result if 0
deeptools chip-seq bamcompare written 3 days ago by HI • 0 • updated 3 days ago by Devon Ryan ♦ 88k
8
votes
1
answer
183
views
1
answer
How extract the longest overlap?
bedtools deeptools bedops intersect overlap written 10 days ago by star • 130 • updated 8 days ago by Biostar ♦♦ 20
2
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1
answer
64
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1
answer
what is difference between -i and -ibam in genomCoverage?
bedtools deeptools genomecoverage bamcoverage written 16 days ago by star • 130 • updated 16 days ago by ATpoint ♦ 14k
0
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1
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127
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1
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ChIP-Seq density plot of the TSS regions?
bedtools deeptools ase chip-seq igv written 5 weeks ago by Susmita Mandal • 30 • updated 5 weeks ago by i.sudbery ♦ 4.0k
3
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1
answer
174
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1
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error while reading bigwig files in computeMatrix (deeptools)
deeptools bigwig coverage computematrix written 7 weeks ago by Lila M • 460 • updated 7 weeks ago by Devon Ryan ♦ 88k
2
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0
answers
152
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0
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Identify genes with chip signal > input prior to peak calling
enrichment galaxy chip-seq chip signal deeptools written 7 weeks ago by SciDuck • 20
0
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0
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87
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0
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How to deal with wig files separate bu watson and crick strand
deeptools groseq wig tssprofile written 8 weeks ago by Lila M • 460
0
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0
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197
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0
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Deeptool ComputeGCBias causes fatal error
software error deeptools computegcbias sequencing written 3 months ago by mfro1505 • 0 • updated 3 months ago by RamRS ♦ 20k
2
votes
1
answer
357
views
1
answer
Installing and running pyGenomeTracks
pygenometracks deeptools hicmatrix hicexplorer written 5 months ago by rbronste • 230 • updated 3 months ago by wolffj.bioinf • 10
3
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1
answer
215
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1
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Using FeatureCounts for ChIP-seq normalised files?
deeptools chip-seq written 3 months ago by a.rex • 180 • updated 3 months ago by Devon Ryan ♦ 88k
0
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0
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174
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0
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Can I use deeptools to calculate nucleosome positions?
deeptools atac written 3 months ago by a.rex • 180
0
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0
answers
277
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0
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Explaining PCA plots made from BigWig coverage files in DeepTools
deeptools atac-seq written 3 months ago by a.rex • 180 • updated 3 months ago by RamRS ♦ 20k
0
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0
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158
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0
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Deeptools plotCorrelation function bug?
deeptools plotcorrelation written 5 months ago by Zee_S • 20
3
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2
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1.7k
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2
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ValueError: invalid literal for int() with base 10: 'start' computeMatrix of deeptools
deeptools chip-seq written 21 months ago by salamandra • 180 • updated 6 months ago by RamRS ♦ 20k
1
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1
answer
359
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1
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deepTools2: compute matrix error
software error deeptools galaxy written 6 months ago by dabates06 • 0 • updated 6 months ago by Devon Ryan ♦ 88k
2
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1
answer
172
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1
answer
what scale does multiBigwigSummary use for score
multibigwigsummary deeptools score written 6 months ago by Lila M • 460 • updated 6 months ago by Devon Ryan ♦ 88k
3
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1
answer
451
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1
answer
Different bigwig file sizes between BedgraphToBigwig and bamCoverage
bamcoverage ucsc bigwig deeptools bedgraphtobigwig written 7 months ago by m93 • 140
2
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1
answer
541
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1
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deeptools bamcompare/bamcoverage merging bins?
deeptools chip-seq written 8 months ago by gewa • 0 • updated 8 months ago by ATpoint ♦ 14k
2
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1
answer
321
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1
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deepTools - change line colors in profile plots above a heatmap
deeptools profile plot heatmap written 8 months ago by mbk0asis • 410 • updated 8 months ago by Devon Ryan ♦ 88k
2
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1
answer
638
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1
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Deeptools plotHeatmap: too much black! missing data assigned incorrectly
plotheatmap deeptools missing data computematrix written 8 months ago by David K • 0 • updated 8 months ago by Devon Ryan ♦ 88k
5
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2
answers
354
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2
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deepTools plot profile problem
deeptools title profile written 9 months ago by elisheva • 70 • updated 9 months ago by Devon Ryan ♦ 88k
2
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1
answer
445
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1
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Y axis PlotHeatMap Deeptools
deeptools written 9 months ago by fusion.slope • 200 • updated 9 months ago by Devon Ryan ♦ 88k
1
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1
answer
380
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1
answer
Plotting multiple signal files against a single genomic region
deeptools chip-seq rna-seq written 12 months ago by keller.mckowen • 10 • updated 11 months ago by Alex Reynolds ♦ 27k
1
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1
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483
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1
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Can't upgrade deeptools 2.5.7 to 3.0 via conda 4.5.0 on Debian Jessie
deeptools written 11 months ago by ZheFrench • 200 • updated 11 months ago by Devon Ryan ♦ 88k
1
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0
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805
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Deeptools - ComputeMatrix: Why does 'referencePoint center' gives the same heatmap as 'referencePoint TSS'
deeptools chip-seq sequencing written 12 months ago by salamandra • 180
0
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0
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696
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0
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ChIP-seq heatmap: Which MACS2 output file should we give as input into deeptools computeMatrix?
deeptools macs2 chip-seq computematrix rna-seq written 12 months ago by salamandra • 180
2
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1
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546
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1
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Comparison of bamCoverage log2 ratios in deeptools
deeptools chip-seq correlation written 12 months ago by ATpoint ♦ 14k • updated 12 months ago by Devon Ryan ♦ 88k
0
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0
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344
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0
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Estimate Fragment Size from Single End ChipSeq with (pysam, htseq lib or deeptools API)
htseq deeptools pysam written 13 months ago by ZheFrench • 200
101
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7
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63 follow
7
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Forum: Visualization of ChIP-seq data using Heatmaps (Updated: 06/10/16)
homer deeptools forum chip-seq ngsplot visualization written 3.0 years ago by Sinji • 2.8k • updated 14 months ago by chiefcat • 90
1
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2
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611
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2
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[ChIP-seq. signal plot] How to align the based line of different samples?
deeptools chip-seq normalization written 14 months ago by chiefcat • 90 • updated 14 months ago by Dave Gerrard • 190
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