bioconda / packages / bioconductor-hiccompare 1.10.0

HiCcompare: Joint normalization and comparative analysis of multiple Hi-C datasets

Installers

Info: This package contains files in non-standard labels.

conda install

  • linux-64  v1.2.0
  • osx-64  v1.0.0
  • noarch  v1.10.0
To install this package with conda run one of the following:
conda install -c bioconda bioconductor-hiccompare
conda install -c bioconda/label/gcc7 bioconductor-hiccompare
conda install -c bioconda/label/cf201901 bioconductor-hiccompare

Description

HiCcompare provides functions for joint normalization and difference detection in multiple Hi-C datasets. HiCcompare operates on processed Hi-C data in the form of chromosome-specific chromatin interaction matrices. It accepts three-column tab-separated text files storing chromatin interaction matrices in a sparse matrix format which are available from several sources. HiCcompare is designed to give the user the ability to perform a comparative analysis on the 3-Dimensional structure of the genomes of cells in different biological states.HiCcompare differs from other packages that attempt to compare Hi-C data in that it works on processed data in chromatin interaction matrix format instead of pre-processed sequencing data. In addition, HiCcompare provides a non-parametric method for the joint normalization and removal of biases between two Hi-C datasets for the purpose of comparative analysis. HiCcompare also provides a simple yet robust method for detecting differences between Hi-C datasets.

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