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LieberInstitute / BiocMAP

Our typical analysis steps for WGBS data, starting from FASTQ reads and ending with the construction of bsseq objects. Created using nextflow
http://research.libd.org/BiocMAP/
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Create docker images #19

Closed Nick-Eagles closed 3 years ago

Nick-Eagles commented 3 years ago

We will plan to support managing software dependencies using docker. This will require the creation of some new docker images. In particular, we'll likely need to produce an image for the trimming and FastQC steps (containing FastQC, cutadapt, and Trim Galore), one with Arioc, one for the FilterAlignments process (containing samtools and samblaster), one containing MethylDackel and samtools, and one containing Bismark. Many processes can re-use existing images used by SPEAQeasy.

Nick-Eagles commented 3 years ago

This commit produced initial versions of each of the above mentioned dockerfiles. However, they still need to be tested and then pushed to Docker Hub.

Nick-Eagles commented 3 years ago

All images are now created, pushed to dockerhub, and tested.