casanovo good first issues (Python)

Improve the end-of-run report: finer score bins and throughput 20 days ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Split tests/unit_tests/test_unit.py by module 20 days ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Bring the documentation back in sync with the code 28 days ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Tokenizer alphabet does not match the configured residues 28 days ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Every UserWarning is written to the log twice, and one has a stray line break 28 days ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

allow val_check_interval to be a float 3 months ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

"Configured residue(s) not in model alphabet" warning fires spuriously during training from scratch 6 months ago

bug good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Casanovo does not check for repeated m/z values in spectra 6 months ago

enhancement good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

shuffle_buffer_size buffers batches, not samples 7 months ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Warning about mismatched residue alphabet 7 months ago

bug good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Allow user to control frequency of reporting training loss 8 months ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Track scan numbers in MGF files 8 months ago

enhancement good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Add training set size to log file 8 months ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Unneeded check for directory 10 months ago

bug good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Warn for annotated spectra with unknown sequence formatting 11 months ago

bug good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Add peptide db output 11 months ago

enhancement good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

min_peptide_length about 1 year ago

bug good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Remove reverse_peptide flag about 1 year ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Peptide length in the log summary is not the same as in the input about 1 year ago

bug good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Casanovo always logs `Mismatching tokenizer parameter in model checkpoint vs config file` warning about 1 year ago

good first issue

Noble-Lab/casanovo

195

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

Python

Noble-Lab/casanovo

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