- extract_peaks_pypkl (untracked)
- anaconda3 (untracked)
- generate_spectrum_index (1.1, latest is 1.0)
- anaconda2 (untracked)
Last updated: Thu Oct 13 11:58:33 2022.
There's a bug when a mod is on the second to last amino acid of the spectrum, the closing bracket is after the final amino acid, not before it. For example: mzspec:PXD010154:01284_D01_P013188_B00_N04_R1:scan:38131:TTGIVLDSGDGVTHNVPIYEGYALPHAIM[+15.994915R]/3
Notes in Slack - to be transferred here
Use code from PEPTIDE_STATISTICS2 to do the exon mapping at the same time as the database mapping.
Is a good match, but has a terrible cosine because of noise.
Make sure that this workflow can input a library and output code that Explorer suite outputs (and add resulting result views for double checking the information).
Currently a lot of unused outputs, clean up code to only use a rewritten version of peptide_stats_coverage_map.
Add scores for proteins from inputs and also output protein FDR for specific subsets of proteins (with score cutoff, with 2+ HPP sequences, etc.)
Need to remove SNR2 filter and window filter for annotated cosine, to see.
Read these from ProteinExplorer and use in the output for mapping - seems like super low hanging fruit.
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