MSFragger Results Folder Reader

[mzhastings]

Implemented method to more efficiently access MsFragger results using the full results folder rather than accessing each psm.tsv file within the folder individually.

Main

• MsFraggerCombinedResults uses the path to the folder generated by MsFragger to collectively access the results from every psm.tsv file in the folder and concatenate them into one complete list of results.

Result Files

• ExperimentAnnotation and ExperimentAnnotationFile enable reading of the expriment_annotation.tsv file produced in the MsFragger results folder. This file contains the file path to each raw result file and their corresponding sample names, which are both necessary for locating the psm.tsv files.

[codecov]

Codecov Report

Attention: Patch coverage is 92.85714% with 8 lines in your changes missing coverage. Please review.

Project coverage is 75.59%. Comparing base (983c3b0) to head (49a5149).

Files with missing lines	Patch %	Lines
...nalResults/ResultFiles/MsFraggerCombinedResults.cs	92.30%	4 Missing and 2 partials ⚠️
...nalResults/ResultFiles/ExperimentAnnotationFile.cs	89.47%	1 Missing and 1 partial ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##           master     #792      +/-   ##
==========================================
+ Coverage   75.52%   75.59%   +0.06%     
==========================================
  Files         202      205       +3     
  Lines       30945    31057     +112     
  Branches     3129     3142      +13     
==========================================
+ Hits        23371    23477     +106     
- Misses       7040     7044       +4     
- Partials      534      536       +2     

Files with missing lines	Coverage Δ
...ts/IndividualResultRecords/ExperimentAnnotation.cs	100.00% <100.00%> (ø)
...rs/ExternalResults/ResultFiles/MsFraggerPsmFile.cs	100.00% <ø> (+5.26%)	⬆️
mzLib/Readers/Util/SupportedFileTypes.cs	97.59% <100.00%> (+0.09%)	⬆️
...nalResults/ResultFiles/ExperimentAnnotationFile.cs	89.47% <89.47%> (ø)
...nalResults/ResultFiles/MsFraggerCombinedResults.cs	92.30% <92.30%> (ø)

[nbollis]

Great idea. Working with all the fragger individual files is very annoying, this will be a lovely addition to our ever-growing collection of readers