PepFoot project file (.pfoot)

PepFoot .pfoot files are a human-readable JSON file. Not all of the data in the .pfoot file is necessary for PepFoot to read them correctly. The keys correspond to the following schema:

Key	Description
name	Project name
creation date	Creation datetime of project
data files	List of data files [filepath1, filepath2, ...]
sequence	Sequence of protein
length range	Peptide length range parameters
charge range	Charge state range parameters
enzyme	Enzyme used for cleavage
missed cleave	Number of missed cleavages
fixed mods	List of fixed modifications applied to protein
differential mod	Differential modification applied to peptides
peptides	1xN array of peptide ids e.g. 1-15
m/z array	2xN array of m/z ranges for analysis [[unmod m/z, ...],[mod m/z, ...]]
charge array	1xN array of peptide charges
rt array	2xN array of rt ranges for analysis [[unmod rt, ...],[mod rt, ...]]
areas	2xNxM array of area values from analysis [[unmod area, ...],[mod area, ...], ...]
fractional mod	NxM array of fractional modification values from analysis
treatment	Nested list with indices for data files grouped by treatment [[#, ...],[#, ...]]
pdb file	PDB file associated with project