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5
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2
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65
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2
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deepTools plot profile problem
deeptools title profile written 6 days ago by elisheva • 70 • updated 6 days ago by Devon Ryan ♦ 80k
2
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1
answer
103
views
1
answer
Y axis PlotHeatMap Deeptools
deeptools written 20 days ago by fusion.slope • 150 • updated 20 days ago by Devon Ryan ♦ 80k
1
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1
answer
188
views
1
answer
Plotting multiple signal files against a single genomic region
deeptools chip-seq rna-seq written 3 months ago by keller.mckowen • 10 • updated 8 weeks ago by Alex Reynolds ♦ 24k
1
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1
answer
168
views
1
answer
Can't upgrade deeptools 2.5.7 to 3.0 via conda 4.5.0 on Debian Jessie
deeptools written 9 weeks ago by ZheFrench • 130 • updated 9 weeks ago by Devon Ryan ♦ 80k
1
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0
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224
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0
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Deeptools - ComputeMatrix: Why does 'referencePoint center' gives the same heatmap as 'referencePoint TSS'
deeptools chip-seq sequencing written 3 months ago by salamandra • 130
0
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0
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254
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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 3 months ago by salamandra • 130
2
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1
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217
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1
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Comparison of bamCoverage log2 ratios in deeptools
deeptools chip-seq correlation written 3 months ago by ATpoint • 4.4k • updated 3 months ago by Devon Ryan ♦ 80k
0
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0
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139
views
0
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Estimate Fragment Size from Single End ChipSeq with (pysam, htseq lib or deeptools API)
htseq deeptools pysam written 4 months ago by ZheFrench • 130
96
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7
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15k
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57 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 2.3 years ago by Sinji • 2.6k • updated 5 months ago by chiefcat • 70
1
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2
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311
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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 5 months ago by chiefcat • 70 • updated 5 months ago by Dave Gerrard • 190
2
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1
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514
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1
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[ChIP-seq. signal plot] How to merge ChIP-seq. biological replicates for signal profile plotting?
deeptools biological replicates chip-seq written 5 months ago by chiefcat • 70 • updated 5 months ago by Devon Ryan ♦ 80k
3
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0
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418
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0
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Help with DeepTools
software error deeptools chip-seq written 5 months ago by landrjos • 10 • updated 5 months ago by genomax ♦ 49k
2
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1
answer
251
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1
answer
how to draw two different Y-axes with deeptools?
chh deeptools methylation written 6 months ago by edoardobertolini • 0 • updated 6 months ago by Devon Ryan ♦ 80k
0
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1
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415
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1
answer
plotProfile (deepTools) generated a peak on gene body region
plotprofile deeptools written 6 months ago by mbk0asis • 350 • updated 6 months ago by Devon Ryan ♦ 80k
6
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1
answer
604
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5 follow
1
answer
deeptools PCA vs ChIPQC PCA
deeptools diffbind chipqc chipseq written 9 months ago by ZheFrench • 130 • updated 9 months ago by Devon Ryan ♦ 80k
1
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0
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740
views
0
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how to process spike-in with bamCoverage and plotHeatmap (with deeptools)
deeptools spike chip-seq normalization written 14 months ago by alessandro.pastore • 30
3
votes
1
answer
860
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1
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ValueError: invalid literal for int() with base 10: 'start' computeMatrix of deeptools
deeptools chip-seq written 12 months ago by salamandra • 130 • updated 11 months ago by Biostar ♦♦ 20
3
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1
answer
397
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1
answer
deepTools draw coverage for specific region
deeptools alignment bam written 11 months ago by Medhat • 7.6k • updated 11 months ago by Devon Ryan ♦ 80k
2
votes
1
answer
510
views
1
answer
Extract further information from deepTools plotPCA
deeptools chip-seq written 11 months ago by Roman Hillje • 30
1
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0
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482
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0
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plotProfile with mean of bigwig files
plotprofile deeptools average bigwig mean written 11 months ago by ildem • 20
3
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1
answer
418
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1
answer
deepTools - plotHeatmap, move colorbar to the bottom
deeptools heatmap written 12 months ago by rbronste • 160 • updated 12 months ago by Devon Ryan ♦ 80k
4
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2
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367
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2
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Filter for regions containing large stretches of missing data
plotheatmap deeptools missing data computematrix written 12 months ago by mmmmcandrew • 60 • updated 12 months ago by Alex Reynolds ♦ 24k
0
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2
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742
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2
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deeptools installation on MacBook
mac deeptools install written 15 months ago by BioDH • 0 • updated 12 months ago by inowkeren • 0
5
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1
answer
506
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6 follow
1
answer
Deeptools Sorting for score values
deeptools sorting heatmaps written 13 months ago by groupelmarwolf • 0 • updated 13 months ago by Devon Ryan ♦ 80k
2
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0
answers
530
views
0
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bamCompare log2 ratio p-value
p-value deeptools bamcompare log2ratio written 14 months ago by dovi • 40
2
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2
answers
535
views
2
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Comparison of ChIPseq enrichment in specific regions
deeptools chip-seq written 14 months ago by Roman Hillje • 30 • updated 14 months ago by Rory Stark • 460
0
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1
answer
373
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1
answer
deepTools white dots on black background
deeptools written 14 months ago by Kasthuri • 220
1
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1
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617
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1
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Deeptools plotHeatmap - Maintain Order of Input BED file
plotheatmap deeptools written 14 months ago by cpak1981 • 100 • updated 14 months ago by Devon Ryan ♦ 80k
1
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1
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495
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1
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Question chip enrichment
deeptools chip-seq written 14 months ago by kanwarjag • 890 • updated 14 months ago by Devon Ryan ♦ 80k
5
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0
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460
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0
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How to split a bed file according promoter window (-30 to 300bp)
bed chip-seq coverage deeptools edit written 16 months ago by Lila M • 370
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