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bcftools is suite of tools for operating on VCF files.

Building the Docker Container

To build the Docker container:

$ docker build -t dockerbiotools/bcftools .

Running bcftools

You can run the fastStructure scripts like so:

$ docker run --rm --privileged -v /host/path:/data dockerbiotools/bcftools tool arguments...

Since Docker containers have isolated file systems and changes to those filesystem do not persist between runs, you will need to mount a local directory inside the Docker container. To do so, replace /host/path with a local directory in the above command. Use the path /data in script arguments.

Available tools include:

  • bcftools
  • bgzip
  • htsfile
  • plot-vcfstats
  • tabix
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