djhshih/seqkit repository overview

⁠Content

• bash, perl, python2
• bwa
• samblaster
• sambamba
• samtools
• bcftools
• bedtools
• vcftools

⁠Usage

After pulling the image, you can run the image using /bin/bash as the entry point.

docker pull djhshih/seqkit
docker run -it --rm djhshih/seqkit /bin/bash

Then you can run any of the above tools inside the shell.

A data directory may be mounted

docker run -it --rm -v $(pwd)/data:/data djhshih/seqkit

You can also run a tool directly by

docker run -it --rm djhshih/seqkit samtools

For more information on how this image was built, see https://github.com/djhshih/biopkgs⁠