[](https://GitHub.com/genotoul-bioinfo/dgenies/releases/) [](https://badge.fury.io/py/dgenies) [](https://github.com/genotoul-bioinfo/dgenies/blob/master/LICENSE.txt)
[](https://www.python.org/) [](http://dgenies.readthedocs.io/?badge=latest) [](https://GitHub.com/genotoul-bioinfo/dgenies/releases/) [](http://pepy.tech/project/dgenies)
D-Genies
--------
Dot plots are widely used to quickly compare sequence sets. They provide a synthetic similarity overview, highlighting repetitions, breaks and inversions. Different tools have been developed to easily generated genomic alignment dot plots, but they are often limited in the input sequence size. D-GENIES is a standalone and WEB application performing large genome alignments using [Minimap2](https://github.com/lh3/minimap2) or [MashMap v2.0](https://github.com/marbl/MashMap/) software packages and generating interactive dot plots. It enables users to sort query sequences along the reference, zoom in the plot and download several image, alignment or sequence files. D-GENIES is an easy to install open source software package (GPL) developed in Python and JavaScript.
How to use?
-----------
You can use the [demo instance hosted at genotoul](http://dgenies.toulouse.inrae.fr).
Or you can deploy your own instance with the help of [the installation documentation](http://dgenies.toulouse.inrae.fr/install).
Documentation
-------------
Full documentation, including code API, is available [here](https://dgenies.readthedocs.io/en/latest/index.html).
How to cite?
------------
Cabanettes F, Klopp C. (2018) D-GENIES: dot plot large genomes in an interactive, efficient and simple way. PeerJ 6:e4958 https://doi.org/10.7717/peerj.4958
Credits
-------
D-Genies is developed by the [Bioinfo team](http://bioinfo.genotoul.fr/index.php/about-us/) of the [Genotoul platform](http://www.genotoul.fr/) ([INRAE](http://www.inrae.fr/)).
Raw data
{
"_id": null,
"home_page": "http://dgenies.toulouse.inra.fr",
"name": "dgenies",
"maintainer": "Philippe Bordron",
"docs_url": null,
"requires_python": "",
"maintainer_email": "philippe.bordron@inrae.fr",
"keywords": "bioinformatics,genome,comparison,dotplot,inrae,genotoul",
"author": "Floreal Cabanettes",
"author_email": "floreal.cabanettes@inra.fr",
"download_url": "https://files.pythonhosted.org/packages/ee/01/18dff0ac0bd6a50844b2bf0d2948d74b055031b56777797f259f51d2fb1b/dgenies-1.5.0.tar.gz",
"platform": null,
"description": "[](https://GitHub.com/genotoul-bioinfo/dgenies/releases/) [](https://badge.fury.io/py/dgenies) [](https://github.com/genotoul-bioinfo/dgenies/blob/master/LICENSE.txt)\n [](https://www.python.org/) [](http://dgenies.readthedocs.io/?badge=latest) [](https://GitHub.com/genotoul-bioinfo/dgenies/releases/) [](http://pepy.tech/project/dgenies)\n\nD-Genies\n--------\n\nDot plots are widely used to quickly compare sequence sets. They provide a synthetic similarity overview, highlighting repetitions, breaks and inversions. Different tools have been developed to easily generated genomic alignment dot plots, but they are often limited in the input sequence size. D-GENIES is a standalone and WEB application performing large genome alignments using [Minimap2](https://github.com/lh3/minimap2) or [MashMap v2.0](https://github.com/marbl/MashMap/) software packages and generating interactive dot plots. It enables users to sort query sequences along the reference, zoom in the plot and download several image, alignment or sequence files. D-GENIES is an easy to install open source software package (GPL) developed in Python and JavaScript.\n\nHow to use?\n-----------\n\nYou can use the [demo instance hosted at genotoul](http://dgenies.toulouse.inrae.fr).\n\nOr you can deploy your own instance with the help of [the installation documentation](http://dgenies.toulouse.inrae.fr/install).\n\nDocumentation\n-------------\n\nFull documentation, including code API, is available [here](https://dgenies.readthedocs.io/en/latest/index.html).\n\nHow to cite?\n------------\n\nCabanettes F, Klopp C. (2018) D-GENIES: dot plot large genomes in an interactive, efficient and simple way. PeerJ 6:e4958 https://doi.org/10.7717/peerj.4958\n\nCredits\n-------\n\nD-Genies is developed by the [Bioinfo team](http://bioinfo.genotoul.fr/index.php/about-us/) of the [Genotoul platform](http://www.genotoul.fr/) ([INRAE](http://www.inrae.fr/)).\n",
"bugtrack_url": null,
"license": "",
"summary": "Dotplot large Genomes in an Interactive, Efficient and Simple way",
"version": "1.5.0",
"project_urls": {
"Bug Tracker": "https://github.com/genotoul-bioinfo/dgenies/issues",
"Changelog": "https://github.com/genotoul-bioinfo/dgenies/blob/master/CHANGELOG.md",
"Homepage": "http://dgenies.toulouse.inra.fr",
"Sources": "https://github.com/genotoul-bioinfo/dgenies",
"Wiki": "https://github.com/genotoul-bioinfo/dgenies/wiki"
},
"split_keywords": [
"bioinformatics",
"genome",
"comparison",
"dotplot",
"inrae",
"genotoul"
],
"urls": [
{
"comment_text": "",
"digests": {
"blake2b_256": "0a90a5ca66d533325f7bf5cb69ef264b1b6e4010f35252c41fe0d257f2ef84a6",
"md5": "4e1e2140e672574075231c052c81f4e8",
"sha256": "7d21135c320729915a3b2fabd5bf0e81c6c69a53c0d5f2e5670ce76fdf0fdde3"
},
"downloads": -1,
"filename": "dgenies-1.5.0-py3-none-any.whl",
"has_sig": true,
"md5_digest": "4e1e2140e672574075231c052c81f4e8",
"packagetype": "bdist_wheel",
"python_version": "py3",
"requires_python": null,
"size": 3590819,
"upload_time": "2023-05-04T15:31:47",
"upload_time_iso_8601": "2023-05-04T15:31:47.423811Z",
"url": "https://files.pythonhosted.org/packages/0a/90/a5ca66d533325f7bf5cb69ef264b1b6e4010f35252c41fe0d257f2ef84a6/dgenies-1.5.0-py3-none-any.whl",
"yanked": false,
"yanked_reason": null
},
{
"comment_text": "",
"digests": {
"blake2b_256": "ee0118dff0ac0bd6a50844b2bf0d2948d74b055031b56777797f259f51d2fb1b",
"md5": "786073d7965f396cd4d56790ba5ae4b7",
"sha256": "74be9d66095a1e3e1dcc70f69c3a61a0d651b16594a85878d83216dfc6979aa5"
},
"downloads": -1,
"filename": "dgenies-1.5.0.tar.gz",
"has_sig": true,
"md5_digest": "786073d7965f396cd4d56790ba5ae4b7",
"packagetype": "sdist",
"python_version": "source",
"requires_python": null,
"size": 3510365,
"upload_time": "2023-05-04T15:31:51",
"upload_time_iso_8601": "2023-05-04T15:31:51.200479Z",
"url": "https://files.pythonhosted.org/packages/ee/01/18dff0ac0bd6a50844b2bf0d2948d74b055031b56777797f259f51d2fb1b/dgenies-1.5.0.tar.gz",
"yanked": false,
"yanked_reason": null
}
],
"upload_time": "2023-05-04 15:31:51",
"github": true,
"gitlab": false,
"bitbucket": false,
"codeberg": false,
"github_user": "genotoul-bioinfo",
"github_project": "dgenies",
"travis_ci": false,
"coveralls": false,
"github_actions": false,
"requirements": [],
"lcname": "dgenies"
}
JSON
