| Name | deepTools JSON |
| Version |
3.5.5
JSON |
| download |
| home_page | |
| Summary | Useful tools for exploring deep sequencing data. |
| upload_time | 2024-03-08 15:43:54 |
| maintainer | |
| docs_url | None |
| author | Fidel Ramirez, Devon P Ryan, Björn Grüning, Friederike Dündar, Sarah Diehl, Vivek Bhardwaj, Fabian Kilpert, Andreas S Richter, Steffen Heyne, Thomas Manke |
| requires_python | >=3.8 |
| license | The file deeptools/cm.py is licensed under the BSD license, see a copy in that file. The remainder of the code is licensed under the MIT license: Copyright 2019 Max Planck Institute for Immunobiology and Epigenetics Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. |
| keywords |
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| VCS |
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| bugtrack_url |
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| requirements |
No requirements were recorded.
|
| Travis-CI |
No Travis.
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| coveralls test coverage |
No coveralls.
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======================================================================
deepTools
======================================================================
User-friendly tools for exploring deep-sequencing data
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
deepTools addresses the challenge of handling the large amounts of data
that are now routinely generated from DNA sequencing centers. deepTools
contains useful modules to process the mapped reads data for multiple
quality checks, creating **normalized coverage files** in standard
bedGraph and bigWig file formats, that allow comparison between
different files (for example, treatment and control). Finally, using
such normalized and standardized files, deepTools can create many
publication-ready **visualizations** to identify enrichments and for
functional annotations of the genome.
For support or questions please make a post on `Biostars <http://biostars.org>`__. For feature requests, please open an issue on `github <http://github.com/deeptools/deeptools>`__.
For further documentation, please see our `read the docs page <http://deeptools.readthedocs.org/>`__.
Citation:
^^^^^^^^^
Ramírez F, Ryan DP, Grüning B, Bhardwaj V, Kilpert F, Richter AS, Heyne
S, Dündar F, Manke T. `deepTools2: a next generation web server for
deep-sequencing data
analysis. <https://nar.oxfordjournals.org/content/early/2016/04/12/nar.gkw257.abstract>`__
Nucleic Acids Research. 2016 Apr 13:gkw257.
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