Skip to main content

Helper package which implements HiCMatrix class for HiCExplorer, pyGenomeTracks and scHiCExplorer.

Project description

This library implements the central class of HiCExplorer to manage Hi-C interaction matrices. It is separated from the main project to enable Hi-C matrices in other projects without the dependency on HiCExplorer. Moreover, it enables us to use the already separated pyGenomeTracks (former hicPlotTADs) in HiCExplorer because mutual dependencies are resolved.

With version 8, we dropped the support for Python 2.

Version 14 introduced the official support for scool file format, used by scHiCExplorer since version 5: https://github.com/joachimwolff/scHiCExplorer and https://schicexplorer.readthedocs.io/en/latest/.

Read support

  • h5

  • cool / mcool / scool

  • hicpro

  • homer

Write support

  • h5

  • cool / mcool

  • scool

  • homer

  • ginteractions

  • hicpro

Citation:

Joachim Wolff, Leily Rabbani, Ralf Gilsbach, Gautier Richard, Thomas Manke, Rolf Backofen, Björn A Grüning. Galaxy HiCExplorer 3: a web server for reproducible Hi-C, capture Hi-C and single-cell Hi-C data analysis, quality control and visualization, Nucleic Acids Research, Volume 48, Issue W1, 02 July 2020, Pages W177–W184, https://doi.org/10.1093/nar/gkaa220

Project details


Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

hicmatrix-17.2.tar.gz (43.8 kB view details)

Uploaded Source

Built Distribution

HiCMatrix-17.2-py3-none-any.whl (47.5 kB view details)

Uploaded Python 3

File details

Details for the file hicmatrix-17.2.tar.gz.

File metadata

  • Download URL: hicmatrix-17.2.tar.gz
  • Upload date:
  • Size: 43.8 kB
  • Tags: Source
  • Uploaded using Trusted Publishing? No
  • Uploaded via: twine/4.0.2 CPython/3.11.9

File hashes

Hashes for hicmatrix-17.2.tar.gz
Algorithm Hash digest
SHA256 a333190a2b60d978e5fcb39efd874fca97630cd12c6e58e7e5ad8d7139e32078
MD5 6521150d444ad6be9b97ae3667efe107
BLAKE2b-256 59745163be902d0e4c985ed6367d4243f4c2930ef987faa9175d6c840dffa22b

See more details on using hashes here.

Provenance

File details

Details for the file HiCMatrix-17.2-py3-none-any.whl.

File metadata

  • Download URL: HiCMatrix-17.2-py3-none-any.whl
  • Upload date:
  • Size: 47.5 kB
  • Tags: Python 3
  • Uploaded using Trusted Publishing? No
  • Uploaded via: twine/4.0.2 CPython/3.11.9

File hashes

Hashes for HiCMatrix-17.2-py3-none-any.whl
Algorithm Hash digest
SHA256 6e926c3773fc0e6ac6ea0ffd9a800664c77849052de214fc2c387da07571d61a
MD5 69283091b372197a8a6e7d1e45fac465
BLAKE2b-256 824d1fcf74ad06b114f3ae4a528f582bba38330cb71a5c4afe58e4752a8a7dd0

See more details on using hashes here.

Provenance

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page