recipe funannotate

funannotate: eukaryotic genome annotation pipeline

Homepage

https://github.com/nextgenusfs/funannotate

Documentation

funannotate.readthedocs.io

License

BSD / BSD-2-Clause

Recipe

/funannotate/meta.yaml

package funannotate

Versions

1.8.7-0,  1.8.5-1,  1.8.5-0,  1.8.3-0,  1.8.1-1,  1.8.1-0,  1.7.4-1,  1.7.4-0,  1.7.3-0, 

1.8.7-0,  1.8.5-1,  1.8.5-0,  1.8.3-0,  1.8.1-1,  1.8.1-0,  1.7.4-1,  1.7.4-0,  1.7.3-0,  1.7.2-0,  1.7.1-1

Depends

• augustus >3.3,<3.4

• bamtools

• bedtools

• biopython

• blast 2.2.31

• codingquarry

• diamond >=2.0.5

• distro

• ete3

• evidencemodeler

• exonerate

• glimmerhmm

• goatools

• hisat2

• hmmer

• iqtree

• kallisto >=0.46.0,<0.46.2

• mafft >=7

• matplotlib-base

• minimap2

• natsort

• numpy

• pandas

• pasa >=2.4.1

• perl

• perl-bioperl >1.7

• perl-clone

• perl-db-file

• perl-dbd-mysql

• perl-hash-merge

• perl-json

• perl-logger-simple

• perl-parallel-forkmanager

• perl-scalar-util-numeric

• perl-soap-lite

• perl-text-soundex

• proteinortho >=6.0.9

• psutil

• python

• r-base >=3.4.1

• raxml

• requests

• salmon >=0.9

• samtools >=1.9

• scikit-learn

• scipy

• seaborn

• snap

• stringtie

• tantan

• tbl2asn

• trimal

• trimmomatic

• trinity >=2.8.5 h8b12597_5

• trnascan-se

• ucsc-pslcdnafilter

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install funannotate

and update with:

conda update funannotate

or use the docker container:

docker pull quay.io/biocontainers/funannotate:<tag>

(see funannotate/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/funannotate/README.html)