Stable UltraSeq build from scratch

https://github.com/flow-r/docker_ultraseq/releases/tag/v0.9.8

Based on Dockerfile: https://github.com/flow-r/docker_ultraseq/blob/c86c252cbfa1b9f06329a067b3fd4cedf9b910c3/Dockerfile

Automated docker image was built at https://hub.docker.com/r/flowrbio/ultraseq/tags/ with docker image id/tag: flowrbio/ultraseq:0.9.8.

flowrbio/ultraseq:0.9.8 image serves as a base image for flowrbio/ultraseq:latest and flowrbio/ultraseq:devel

To pull stable docker image,

docker pull flowrbio/ultraseq:0.9.8

latest docker image:

docker pull flowrbio/ultraseq:latest

devel docker image:

docker pull flowrbio/ultraseq:devel

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Ultraseq Docker Image

Docker container for running Ultraseq - a variant calling pipeline based on GATK best practices to preprocess bams followed by variant calling using MuTect. Docker image does not contain GATK and MuTect softwares as both requires individual license copies. A separate code repository will soon be made available which will use docker ultraseq image to run variant calling using following shell wrapper script:

Docker image is at https://hub.docker.com/r/flowrbio/ultraseq/ with current version:0.9.9

Dry run:

ultraseq.sh \
          -p /scratch/foo/docktest \
          -t tumor.bam \
          -n normal.bam \
          -s samplename \
          -r DRY

Actual run:

ultraseq.sh \
          -p /scratch/foo/docktest \
          -t tumor.bam \
          -n normal.bam \
          -s samplename \
          -r GO

/scratch/foo/docktest is a base ultraseq directory which contains code to run pipeline as well as saves output files, including logs.