feat: remove MSstats post-processing step from quantms#701

Merged

ypriverol merged 12 commits intobigbio:devfrom

ypriverol:feat/remove-msstats-postprocessing

Apr 15, 2026

Commits on Apr 14, 2026

feat: remove msstats_lfq, msstats_tmt modules and R scripts
ypriverol
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feat: remove msstats post-processing from LFQ workflow
ypriverol
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feat: remove msstats post-processing from TMT workflow
ypriverol
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feat: remove msstats post-processing from DIA workflow
ypriverol
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feat: remove msstats params from nextflow.config and nextflow_schema.json

ypriverol
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claude
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feat: remove msstats publishDir config and skip_post_msstats from test configs
ypriverol
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docs: update output.md to reflect removal of msstats post-processing step

ypriverol
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claude
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Merge branch 'dev' into feat/remove-msstats-postprocessing
ypriverol
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Update docs/output.md

ypriverol
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Copilot
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docs: fix MSstats output.md based on copilot review

ypriverol
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claude
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chore: merge bigbio/dev and resolve MSstats removal conflicts

ypriverol
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claude
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style: apply prettier formatting to docs/output.md

ypriverol
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claude
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