funannotate: eukaryotic genome annotation pipeline
Project description
funannotate is a pipeline for genome annotation (built specifically for fungi, but will also work with higher eukaryotes). Installation, usage, and more information can be found at http://funannotate.readthedocs.io
Quickstart:
The pipeline can be installed with conda (via bioconda):
#add appropriate channels
conda config --add channels defaults
conda config --add channels bioconda
conda config --add channels conda-forge
#then create environment
conda create -n funannotate funannotate
If you want to use GeneMark-ES/ET you will need to install that manually following developers instructions: http://topaz.gatech.edu/GeneMark/license_download.cgi
Note that you will need to change the shebang line for all perl scripts in GeneMark to use /usr/bin/env perl
.
You will then also need to add gmes_petap.pl
to the $PATH or set the environmental variable $GENEMARK_PATH to the gmes_petap directory.
To install just the python funannotate package, you can do this with pip:
pip install funannotate
Project details
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
Hashes for funannotate-1.7.2-py2.py3-none-any.whl
Algorithm | Hash digest | |
---|---|---|
SHA256 | 16e0d5e19c5943ce3454ffd99695dd9170d229ea097b21d6cc656bd38988cc75 |
|
MD5 | 3864db53787a47daa277c9e5f5ef004d |
|
BLAKE2b-256 | 9b749e62526f72840a41add434ed5ff9f3adf30ea0bdbcd37c0298db816cd0a6 |