HBP specifications

Unique identifier:
OMICS_14354
Software type:
Pipeline/Workflow
Restrictions to use:
None
Output data:
Interaction frequency distribution, network topology information, global scatter diagram, circus pictures with different tracks, network clusters according to these tracks, topological structure of the global genome and statistical evaluation, distribution of interactions between specific genome sites with their frequency.
Programming languages:
R
Version:
1.0
Requirements:
optparse, grid, lattice, IDPmisc, OmicCircos, stringr, ggplot2, igraph, reshape2, pgirmess, coin, multcomp, flexclust, HiTC, rtracklayer, gplots
Name:
Hi-C BED file analysis Pipeline
Interface:
Command line interface
Input data:
Hi-C raw datasets, interaction matrix files from hiclib or HiC-Pro, tracks files of histone modification or transcription factors DNA binding motif enrichment information of ChIP-seq.
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

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HBP distribution

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HBP support

Documentation

Maintainer

  • Zhihu Zhao <>

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Publications

Institution(s)

Beijing Institute of Biotechnology, Beijing, China

Funding source(s)

This work was supported by National Basic Research Program of China [2013CB966802], National Natural Science Foundation of China [31370762, 31030026, 31272416, 81372218] and National Key Technology R&D Program of China [2012BAI01B07].

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