Morpheus

mass spectrometry–based proteomics database search algorithm

Requirements

Windows: Microsoft .NET Framework 4.0 Client Profile or higher (4.5 or higher recommended)
- Thermo MSFileReader for Thermo version
Linux / Mac OS X: Mono 2.8 or later

In revision 83 and later, sites inducing and preventing cleavage must be separated by commas in proteases.tsv, since multi-amino acid sites are now supported.
In revision 108 and later, proteome databases may be UniProt XML files in addition to FASTA files to support G-PTM searching.
- When an XML file is loaded, its modifications will be read (masses are read from ptmlist.txt), added to your variable modifications list, and checked by default.
In revision 167 and above, an extra column was added to modifications.tsv to allow for neutral loss modification searching.
In revision 255 and above, mzIdentML support necessitated the need to link every modification to UniMod. Therefore, two extra columns, 'UniMod Accession Number' and 'UniMod Name', were were added to modifications.tsv.