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Commits on May 15, 2022

• Update README.md

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• Update README.md

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Commits on May 13, 2022

• bump version

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Commits on May 11, 2022

• Update README.md

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Commits on May 10, 2022

• changed docs location

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• updated docs

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Commits on Apr 25, 2022

• added input validation

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Commits on Apr 17, 2022

• fixed bug in kraken2 pipeline

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• Merge branch 'main' of github.com:ignasrum/hocort

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• bump version to 0.3.3

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Commits on Apr 6, 2022

• Update README.md

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• fixed bug in Bowtie2Bowtie2 - only 1 thread was being utilized

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• renamed bwa_mem2 to bwamem2

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• reset all pipelines to default config

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• lowercase --filter argument

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Commits on Apr 5, 2022

• added preset argument to bbmap + options argument now overrides preset in all pipelines

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• fixed bug with -c argument in pipelines

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• all interface text is now lowercase

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Commits on Apr 4, 2022

• Merge branch 'main' of github.com:ignasrum/hocort

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  cfcc95d

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• removed print statements

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Commits on Apr 3, 2022

• Update README.md

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• added --config to allow arguments to be passed along to aligners

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  f6cc9c0

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• fixed argument order bug

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Commits on Mar 29, 2022

• Update README.md

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• added options to combination pipelines

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• better code formatting

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Commits on Mar 27, 2022

• move external dependency checking from interface.py to __main__.py

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Commits on Mar 26, 2022

• Merge branch 'main' of github.com:ignasrum/hocort

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• moved logger from pipeline.py to pipelines themselves

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• Update README.md

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Commits on Mar 24, 2022

• Update README.md

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Commits on Mar 23, 2022

• Update README.md

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• Update README.md

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• Merge branch 'main' of github.com:ignasrum/hocort

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  2a2626b

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• changed Bowtie2 default mode to end-to-end

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