busco-software
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Table of Contents
BUSCO
BUSCO (Benchmarking Universal Single-Copy Orthologs) assesses genome assembly and annotation completeness with single-copy ortholog.
Information
- Latest Version: 3.0.2
- Added: August, 2015
- Updated: September, 2017
- Link: http://busco.ezlab.org
Usage
See versions of BUSCO which are available:
$ module avail BUSCO
Load one version into your environment:
$ module load BUSCO/3.0.2
After loading the module, consult the built-in help:
$ run_BUSCO.py -h
Note: BUSCO utilizes Augustus and requires you to make a copy of the Augustus configuration for each of your runs as well as set up an environment variable pointing to it, ie:
$ cp -r /export/apps/augustus/3.2.3/config /var/scratch/aorth-augustus-config $ export AUGUSTUS_CONFIG_PATH=/var/scratch/aorth-augustus-config
Installation
Notes from the sysadmin during installation:
$ cd /tmp $ git clone https://gitlab.com/ezlab/busco.git $ cd busco $ git checkout 3.0.2 $ module load python/3.6.1 $ sudo mkdir /export/apps/BUSCO/3.0.2 $ sudo chown aorth /export/apps/BUSCO/3.0.2 $ python -m venv /export/apps/BUSCO/3.0.2 $ . /export/apps/BUSCO/3.0.2/bin/activate $ python setup.py install $ cp -rv * /export/apps/BUSCO/3.0.2 $ cp /export/apps/BUSCO/3.0.2/config/config.ini.default /export/apps/BUSCO/3.0.2/config/config.ini # edit paths in /export/apps/BUSCO/3.0.2/config/config.ini $ sudo chown -R root:root /export/apps/BUSCO/3.0.2
busco-software.1505135199.txt.gz · Last modified: 2017/09/11 13:06 by aorth