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glyclean 0.6.1
Bug fixes
- Fix a bug in
aggregate() where it falled on experiments returned by most glyread functions.
glyclean 0.6.0
Major changes
- Add
add_site_seq() function to add site sequences to a glycopeptide experiment.
glyclean 0.5.0
Major changes
- Add
infer_protein() function to resolve multiple protein assignments for glycopeptides.
- Add
adjust_protein() function to remove protein expression from glycopeptide expression.
Minor improvements
- Rename the first argument of
aggregate() from x to exp to be consistent with other functions.
glyclean 0.4.0
Major changes
- All data processing functions now accept matrices as input in addition to
glyexp_experiment objects.
- The
by parameter in data processing functions now accepts factors in addition to column names, enabling direct use with matrix inputs.
- API updated to support custom grouping factors for batch operations when working with matrices.
Minor improvements
- Improved error messages for
correct_batch_effect() and detect_batch_effect() when column names are not found in sample information.
- More meaningful error messages when providing column names as
batch or group arguments with matrix inputs.
- Enhanced parameter validation and error handling across all modules.
Bug fixes
- Fixed incorrect behavior of
by argument in filter_missing_variable().
- Resolved issues with parameter processing when using different input types.
