feat: Adding somatic neoepitope preparation workflow#495

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giacuong171 wants to merge 27 commits intomainfrom 472-adding-neoepitope-prediction-pipeline

+1,918-42

Commits on Apr 4, 2024

Adding somatic neoepitope preparation workflow
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Satisfying code format
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Satisfying black
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Satisfying snakefmt
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make isort comfort
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Commits on May 22, 2024

update neoepitope prediction
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Make black satisfy
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Commits on Jun 4, 2024

Commits on Jun 11, 2024

Merge branch 'main' into 472-adding-neoepitope-prediction-pipeline
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Commits on Jun 18, 2024

Update preparation for somatic neoepitope prediction
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Merge branch '472-adding-neoepitope-prediction-pipeline' of github.com:bihealth/snappy-pipeline into 472-adding-neoepitope-prediction-pipeline
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Update test
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Commits on Jul 1, 2024

Adding plugins option to VEP
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Merge branch 'main' into 472-adding-neoepitope-prediction-pipeline
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Commits on Jul 3, 2024

Adding plugin options for vep
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Reformat neoepitope prediction for new snappy version
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Satisfies lint
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Commits on Jul 5, 2024

Adding test for somatic neoepitope prediction preparation substep
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Commits on Jul 11, 2024

Preparation for pvactool
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Fix HLA_typing pipeline
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Commits on Jul 15, 2024

Adding test for neoepitope prediction
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Commits on Jul 17, 2024

Adding pvacseq pipeline
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Merge branch 'main' into 472-adding-neoepitope-prediction-pipeline
giacuong171
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make lint happy
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Make linting satisfying
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Reformat hla_typing snakefile
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