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CHANGELOG.md

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CHANGELOG FOR THE MAGMA PIPELINE VERSIONS

v2.0.0

  1. Update tb-profiler to v6.2.1 along with the WHO mutations catalog v2 with the database version 30f8bc37df15affa378ebbfbd3e1eb4c5903056e

  2. Addition of ntm-profiler with the database FIXME

  3. Two new conda-envs and containers have been added to the pipeline, relying directly on upstream biocontainers for both ntm-profiler and tb-profiler

  4. Changes to the directory structure

  5. Addition of mixed-infections resistance summary script

  6. Addition of low_memory profile to accommodate lower end infrastructure

  7. Updates to the names of parameters for triggering partial/optional workflows

v1.1.1

Created a parallel workflow for mapping without using the strict seed lenght for use in the structural variant workflow.

Updated TBProfiler to version 5.0.0 and recreated the resistance database to work with the the new version

Updated the summarize resistance script to include the structural variants in the excel output

v1.0.0

Initial release of the pipeline