Rethink grouping in Box Plots

[RogerAK]

Description

fixes #330 Added an option for the user to select a group of proteins, which can be used to plot a box plot and by if the user doesn't select a protein then as default all the proteins are selected and plotted.

Changes

1. forms\data_preprocessing: Added a multiple choice form to select a group of proteins for all the methods, where a box plot can be plotted
2. imputation, normalisation, transformation, plots: added a parameter for proteins_of_interest
3. Also updated the test to the new structure
4. custom_fields and base.py: Added a new PlotForm so that clean is called properly in data preprocessing plots

Testing

1. Go through the preprocessing section and try plotting box plot in imputation, normalisation and transformation methods

PR checklist

Development

• [x] If necessary, I have updated the documentation (README, docstrings, etc.)
• [x] If necessary, I have created / updated tests.

Mergeability

• [x] main-branch has been merged into local branch to resolve conflicts
• [x] The tests and linter have passed AFTER local merge
• [x] The code has been formatted with black

Code review

• [x] I have self-reviewed my code.
• [ ] At least one other developer reviewed and approved the changes

[github-actions[bot]]

Coverage report

Click to see where and how coverage changed

File	Statements	Missing	Coverage	Coverage (new stmts)	Lines missing
protzilla
steps.py
protzilla/data_analysis
ptm_analysis.py
protzilla/data_preprocessing
filter_proteins.py
normalisation.py
outlier_detection.py
peptide_filter.py
plots.py					148-149
transformation.py
protzilla/importing
peptide_import.py
protzilla/methods
data_analysis.py					631-641
data_preprocessing.py
importing.py					142
ui/runs
form_mapping.py					166-167
views.py					38, 289-291
ui/runs/forms
base.py					105, 108-112
custom_fields.py					88-89
data_analysis.py					926-934, 962
data_preprocessing.py					198-200, 227-229, 256-258, 291-293, 331-333, 374-376, 417-419, 456-459, 494-497, 533-536, 581-584
Project Total

This report was generated by python-coverage-comment-action