Casanovo Nextflow Workflow Documentation (#391)

* nextflow documentation

* nextflow nav prefix, more nextflow docs details

* grammatical fixes

* grammatical fixes

* fixed links

Author: bittremieux

docs/index.md

@@ -21,6 +21,7 @@ maxdepth: 1
 ---
 Getting Started <getting_started.md>
 File Formats <file_formats.md>
+Nextflow Workflow <nextflow.md>
 FAQs <faq.md>
 Citing <cite.md>
 Contributing <CONTRIBUTING.md>

docs/nextflow.md

@@ -0,0 +1,6 @@
+# Casanovo Nextflow Workflow
+
+To simplify the process of setting up and running Casanovo, a dedicated [Nextflow](https://www.nextflow.io/) workflow is available.
+In addition to simplifying 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://proteowizard.sourceforge.io/tools/msconvert.html), infers peptide sequences using Casanovo, and (optionally) uploads the results to [Limelight](https://limelight-ms.org/) - a platform for sharing and visualizing proteomics results.
+The workflow can be used on POSIX-compatible (UNIX) systems, Windows using WSL, or on a cloud platform such as AWS. 
+For more details, refer to the [Casanovo Nextflow Workflow Documentation](https://nf-ms-dda-casanovo.readthedocs.io/en/latest/#).