v0.9.0

v0.9.0

• Bumped Python version to >=3.10,<3.14
• Support for DIA-NN 2.x results (#25)
• Add support for subset protein grouping for multPEP and other protein score types
• Switch to local time for logging
• Implement FastLFQ (#6)
• Eliminate additional pass through precursorQuants for peptide_count columns
• Move tsv reader outside of get_evidence_parser
• Make docker job config compatible with new oktoberfest config format
• Improve documentation for "obsolete" protein group competition
• Only pass score_column to get_evidence_parser; remove option to parse razor proteins from evidence.txt

v0.8.2

v0.8.2

• Fix GUI build

v0.8.1

v0.8.1

• Use context managers for get_tsv_reader/writer

v0.7.9

v0.7.9

• Update job-pool to fix issue with applyAsync callback

v0.7.8

v0.7.8

• Added option to keep decoys in peptide-level FDR calculation
• Added example notebook for protein inference

v0.7.7

v0.7.7

• Added unit test for get_protein_group_results()
• Added default arguments and docstring to get_protein_group_results()
• Reduce logging frequency for MaxLFQ
• Fix column formatting function reference

v0.7.6

v0.7.6

• Fix GUI build
• Remove explicit llvmlite dependency

v0.7.5

v0.7.5

• Update job-pool to v0.3.0
• Allow for numpy v2.0

v0.7.4

v0.7.4

• Make --fasta_use_uniprot_id compatible with quantification
• Fix problem with missing delta mass column for andromeda2pin
• Add support for ms2rescore percolator format (#23)
• Refactored update_evidence_from_pout
• Remove unsupported mq_msms argument for update_evidence_from_pout

v0.7.3

v0.7.3

• Fix nondeterministic behavior of decouple_connected_proteins