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deeptools

Version:
3.5.0_0.1.0
Identifier: TL_8b3ec0.7b
Tool
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Description


User-friendly tools for the normalization and visualization of deep-sequencing data.

Subtools

  • deeptools deepTools_plotHeatmap
  • deeptools deepTools_plotProfile
  • deeptools deepTools_computeMatrix_reference-point
  • deeptools deepTools_bamCoverage
  • deeptools deepTools_computeMatrix_scale-regions

Links

  • https://deeptools.readthedocs.io/en/latest/

  • https://deeptools.readthedocs.io/en/latest/content/api.html

Tags

Genomics
ChIP-seq
Standardisation and normalisation
Visualisation

Biostars

  • Visualization of ChIP-seq data using Heatmaps (Updated: 06/10/16)
  • deepTools2 : User-friendly tools for exploring deep-sequencing data
  • merging two bigwig files
  • Deeptools: computeMatrix - Traceback
  • Normalization of BigWig files using TMM from edgeR
  • Same data, very different heatmaps
  • Deeptools heatmap analysis - graphing unique clusters of heatmap
  • plotProfile with mean of bigwig files
  • GC-BIAS correction for BAM file
  • Plot read density across a normalized gene model for its each exon/intron length
  • Plotting multiple signal files against a single genomic region
  • extract small heatmap from big one deeptools
  • Deeptools plotHeatmap: too much black! missing data assigned incorrectly
  • Visualize top 10 increasing peaks of the ATAC-seq data
  • Overlapping regions in a BedGraph file
  • Deeptools Sorting for score values
  • Deeptools sample scaling
  • GC bias correction deepTools2
  • bamCompare log2 ratio p-value
  • deepTools - plotHeatmap, move colorbar to the bottom
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