Open Issues Need Help
View All on GitHub [Version: Any] MS Annika fails to capture peptide positions for sequences that contain X 2 months ago
AI Summary: The task is to debug MS Annika, a crosslink search engine, to correctly identify peptide positions even when the peptide sequence contains ambiguous characters like 'X' within the protein sequence. The issue arises because the current algorithm fails to find the peptide as a substring when 'X' is present, resulting in an incorrect position report of '-1'. The solution requires modifying the peptide matching algorithm to handle such cases.
Complexity:
4/5
bug help wanted
MS Annika is a crosslink search engine based on MS Amanda, aimed at identifying crosslinks of cleavable and non-cleavable crosslinkers from MS2 and MS3 spectra.
#cross-linking#crosslinker#crosslinking#mass#mass-spectrometry#ms2#ms3#proteomics#search-engine#spectrometry#tandem-ms#xlms