Public Repository

Last pushed: 2 years ago
Short Description
Genetic Association Tools
Full Description

Genetic Tool Set 1.0

Common Tools (I) used in the GWAS world for analysis and imputation. This is a WIP and will change over time

Software List

Tool Url Added In Tag
plink 2.0 https://www.cog-genomics.org/plink2 v0.0.2
beagle https://faculty.washington.edu/browning/beagle/beagle.html#download v0.0.2
minimac3 https://genome.sph.umich.edu/wiki/Minimac3 v0.0.2
plink-1.07-x86_64 https://www.cog-genomics.org/static/bin/plink/plink1_linux_x86_64.zip v0.0.3
EIGENSOFT 6.0.1 https://data.broadinstitute.org/alkesgroup/EIGENSOFT/EIG6.0.1.tar.gz v0.0.4
Impute 2 https://mathgen.stats.ox.ac.uk/impute/impute_v2.3.2_x86_64_static.tgz v0.0.4
gtool https://www.well.ox.ac.uk/~cfreeman/software/gwas/gtool_v0.7.5_x86_64.tgz v0.0.4
fcgene https://downloads.sourceforge.net/project/fcgene/fcgene-1.0.7.tar.gz v0.0.4
qctool https://www.well.ox.ac.uk/~gav/qctool/resources/qctool_v1.4-linux-x86_64.tgz v0.0.4
plinkseq https://psychgen.u.hpc.mssm.edu/plinkseq_downloads/plinkseq-x86_64-latest.zip v0.0.4

All in /usr/local/bin and /home/genetics.

USER set as genetics

docker run -i -t compbio/genetics:latest ${TOOL}

another fat image/container - enjoy!

Docker Pull Command
Owner
compbio