Revision 007275f966b0f51969c6e21d37a38b1b07a82e5c authored by Matt Bull on 10 March 2020, 19:24:10 UTC, committed by GitHub on 10 March 2020, 19:24:10 UTC
1 parent 1d077a9
environment-medaka.yml
name: artic-ncov2019-medaka
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- biopython=1.76
- medaka=0.11.5
- minimap2=2.17
- parasail-python=1.1.19
- pysam=0.15.3
- python=3.6.7
- pyvcf=0.6.8
- samtools=1.9
- python=3
- nodejs=12
- bwa=0.7.17=pl5.22.0_2
- clint=0.5.1=py36_0
- eigen=3.2=3
- ete3=3.1.1=py36_0
- goalign=0.2.8=0
- gotree=0.2.10=0
- muscle=3.8.1551=2
- phyml=3.3.20190909 # references etetoolkit build
- pandas=0.23.0=py36_1
- mafft=7.407=0
- iqtree=1.6.12
- datrie=0.8
- snakemake-minimal=5.8.1
- artic-network::rampart=1.0
- pip
- pip:
- git+https://github.com/artic-network/fieldbioinformatics.git
- git+https://github.com/artic-network/Porechop.git@v0.3.2pre
- binlorry==1.3.0_alpha1
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