Casanovo Nextflow Workflow Documentation #391
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bittremieux
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docs/nextflow.md
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| # Casanovo Nextflow Workflow | ||
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| To simplify the process of setting up and running Casanovo, a dedicated [Nextflow](https://www.nextflow.io/) workflow is available. | ||
| In addition to automatic the installation of Casanovo and its dependencies, the Casanovo Nextflow workflow provides an automated mass spectrometry data pipeline that converts input data files to a Casanovo compatible format using [msconvert](https://bioinformaticshome.com/tools/proteomics/descriptions/msconvert.html#gsc.tab=0), infers peptide sequences using Casanovo, and (optionally) uploads the results to [Limelight](https://limelight-ms.org/) - a platform for sharing and visualizing proteomics results. |
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todo: Official link for msConvert is: https://proteowizard.sourceforge.io/tools/msconvert.html
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This still needs to be fixed. You used the link for msconvert for Nextflow instead, so now two links need to be updated.
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* nextflow documentation * nextflow nav prefix, more nextflow docs details * grammatical fixes * grammatical fixes * fixed links
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Added a Read the Docs page for the Casanovo Nextflow workflow.