Software

Here is an overview of the software that we have published:

MS Amanda

MS Amanda is a scoring system to identify peptides out of tandem mass spectrometry data using a database of known proteins:

🔗 Website	💾 Repository

MS Ana

MS Ana is a scoring system to identify peptides in tandem mass spectrometry data using a library of previously identified spectra. Furthermore, MS Ana can create decoy spectral libraries for validation and run searches for additional modifications not found in the spectral library:

🔗 Website

MS Annika

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:

🔗 Website	💾 Repository

MS Andrea

MSAndrea is an open modification search engine that is designed to directly identify peptide modifications on the PSM level. MS Andrea uses a sequence tag-based approach for filtering peptide candidates before score-based filtering and final scoring using the MS Amanda scoring function.

💾 Repository

pyXLMS

pyXLMS is a python package and web application with graphical user interface that aims to simplify and streamline the intermediate step of connecting crosslink search engine results with down-stream analysis tools:

🔗 Website	💾 Repository