docs(getSubnetworkFromIndra): Switch MSstats as dependency, adjust link to groupComparison

[tonywu1999]

User description

Checklist Before Requesting a Review

• I have read the MSstats contributing guidelines
• My changes generate no new warnings
• Any dependent changes have been merged and published in downstream modules
• Ran styler::style_pkg(transformers = styler::tidyverse_style(indent_by = 4))
• Ran devtools::document()

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PR Type

documentation, enhancement

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Description

• Updated the DESCRIPTION file to move MSstats from Suggests to Imports, ensuring it is a required dependency.
• Enhanced the documentation in R/getSubnetworkFromIndra.R and man/getSubnetworkFromIndra.Rd by linking to the groupComparison function from MSstats.
• Removed unnecessary seealso section from man/getSubnetworkFromIndra.Rd.
• Fixed minor formatting issues in the man/visualizeNetworks.Rd documentation.

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Changes walkthrough 📝

	Relevant files
Dependencies	DESCRIPTION Update package dependencies in DESCRIPTION file                    DESCRIPTION Added MSstats to the Imports section. Removed MSstats from the Suggests section. +2/-2
Documentation	getSubnetworkFromIndra.R Enhance documentation with proper function linking              R/getSubnetworkFromIndra.R Updated documentation to use \code{\link[MSstats]{groupComparison}} for linking. +4/-4      getSubnetworkFromIndra.Rd Improve manual with function linking and cleanup                  man/getSubnetworkFromIndra.Rd Updated documentation to include \code{\link[MSstats]{groupComparison}}. Removed seealso section. +4/-6      visualizeNetworks.Rd Correct formatting in visualizeNetworks documentation        man/visualizeNetworks.Rd Fixed minor formatting issues in the documentation. +4/-4

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PR Reviewer Guide 🔍

Here are some key observations to aid the review process:

⏱️ Estimated effort to review: 2 🔵🔵⚪⚪⚪

🧪 No relevant tests

🔒 No security concerns identified

⚡ Recommended focus areas for review Dependency Management The PR moves 'MSstats' from 'Suggests' to 'Imports', making it a required dependency. Ensure that this change aligns with the project's dependency management strategy and that it does not introduce any issues with package installation or usage. Documentation Update The documentation for the function 'getSubnetworkFromIndra' has been updated to include a link to the 'groupComparison' function from 'MSstats'. Verify that this link is correctly formatted and functional.

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[codecov-commenter]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 88.28%. Comparing base (7f7ed54) to head (aa20704).

Additional details and impacted files

@@           Coverage Diff           @@
##            devel      #22   +/-   ##
=======================================
  Coverage   88.28%   88.28%           
=======================================
  Files           3        3           
  Lines         111      111           
=======================================
  Hits           98       98           
  Misses         13       13           

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