Hi all!
We are excited to announce the public availability of our CWL workflows for our clinical cfDNA assay at Memorial Sloan Kettering Cancer Center in NYC (paper is currently in review). We are happy to have feedback from the community on how to improve our processes and hope to participate in future development of the CWL standard.
Please let us know if we can help in making our workflows more widely useful outside of the MSKCC community.
V1 workflows
Improved V2 workflow using DockerRequirement (fastq to UMI-deduplicated bam)
Documentation