https://github.com/statgen/locuszoom-standalone
Create regional association plots from GWAS or meta-analysis
https://github.com/statgen/locuszoom-standalone
bioinformatics genetics visualization
Last synced: 4 months ago
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Create regional association plots from GWAS or meta-analysis
- Host: GitHub
- URL: https://github.com/statgen/locuszoom-standalone
- Owner: statgen
- Created: 2016-03-02T21:51:44.000Z (about 10 years ago)
- Default Branch: master
- Last Pushed: 2020-01-21T19:41:45.000Z (over 6 years ago)
- Last Synced: 2025-01-13T00:46:21.957Z (over 1 year ago)
- Topics: bioinformatics, genetics, visualization
- Language: Python
- Homepage: http://locuszoom.org/
- Size: 459 KB
- Stars: 59
- Watchers: 13
- Forks: 19
- Open Issues: 15
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Metadata Files:
- Readme: README.md
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README
# LocusZoom Standalone
This repository is for the command line (standalone) version of LocusZoom, an application for creating regional plots from genome-wide association studies built in Python and R.
Documentation for this program is available on our wiki: http://genome.sph.umich.edu/wiki/LocusZoom_Standalone
# Status
This version of LocusZoom is no longer under active development. Bug fixes and small updates may be made, though it is unlikely.
A new web-based interactive version of LocusZoom is currently under active development. Please see the [locuszoom.js github site](https://github.com/statgen/locuszoom/) for information on using it on your own sites, or see a preview of it in action at [locuszoom.org](http://locuszoom.org/locuszoomjs.php).
# Releases
| Build | Version | Date | Size |
|-----------------------------------------------------------------------------------------------------|---------|------------|------|
| [Program + database + LD files](https://statgen.sph.umich.edu/locuszoom/download/locuszoom_1.4.tgz) | 1.4 | 2017-05-01 | 23G |
| [Program + database](https://statgen.sph.umich.edu/locuszoom/download/locuszoom_1.4_nold.tgz) | 1.4 | 2017-05-01 | 16G |
| [Program only](https://statgen.sph.umich.edu/locuszoom/download/locuszoom_1.4_srconly.tgz) | 1.4 | 2017-05-01 | 86K |
| | | | |
| [Program + database + LD files](https://statgen.sph.umich.edu/locuszoom/download/locuszoom_1.3.tgz) | 1.3 | 2014-06-20 | 10G |
| [Program + database](https://statgen.sph.umich.edu/locuszoom/download/locuszoom_1.3_nold.tgz) | 1.3 | 2014-06-20 | 4.3G |
| [Program only](https://statgen.sph.umich.edu/locuszoom/download/locuszoom_1.3_srconly.tgz) | 1.3 | 2014-06-20 | 79K |
Database contains required data for LocusZoom to function, though you can skip it if you are already creating your own.
LD files are entirely optional - you can calculate LD instead from your own genotype files (`--ld-vcf`), or not at all (`--no-ld`).
A full list of changes for each version can be found in the [changelog](docs/CHANGELOG.md).
# Contact
Contact/support options:
* Submit an issue to the repository: https://github.com/statgen/locuszoom-standalone/issues
* Post a message to the Google Group: https://groups.google.com/forum/#!forum/locuszoom