Supplementary material for PAMPA (a software for peptide markers and taxonomic identification for ZooMS samples in Archaeology and Paleontology)

Supplementary data for "PAMPA: a software for peptide markers and taxonomic identification for ZooMS samples in Archaeology and Paleontology": Case study 1 (Classification of MALDI-TOF and MALDI FTICR modern spectra): Moderns Case study 2 (Analysis of 104 archaeological MALDI FTICR mass spectra): Caours Case study 3 (Taxonomic identification of sheep and goat datasets): Sheeps_and_Goats Case study 4 (Taxonomic identification of African bovids): African_bovids Case study 5 (Detection of mixtures): Mixtures Case study 6 (Identification of new peptide markers by homology): Marine_mammals Case study 7 (De novo full peptide generation and filtering): Sheep_Filtering Each folder contains the MS spectra (CSV format), peptide tables, PAMPA result files and occasionally additional files such as annotation and MASCOT files. All details are provided in supplementary_material.pdf. The PAMPA software is available at https://github.com/touzet/pampa, and the COL1A1 and COL1A2 sequences are available at https://github.com/touzet/pampa_sequences.