PyBioMed: a python library for various molecular representations of chemicals, proteins and DNAs and their interactions

Table 3 Protein descriptors of proteins or peptides calculated by PyBioMed

Feature group	Features	Number of descriptors
Amino acid composition	Amino acid composition	20
	Dipeptide composition	400
	Tripeptide composition	8000
Autocorrelation	Normalized Moreau–Broto autocorrelation	240^a
	Moran autocorrelation	240^a
	Geary autocorrelation	240^a
CTD	Composition	21
	Transition	21
	Distribution	105
Conjoint triad	Conjoint triad features	343
Quasi-sequence order	Sequence order coupling number	60
Quasi-sequence order	Quasi-sequence order descriptors	100
Pseudo amino acid composition	Pseudo amino acid composition	50^b
Pseudo amino acid composition	Amphiphilic pseudo amino acid composition	50^c

^aThe number depends on the choice of the number of properties of amino acid and the choice of the maximum values of the lag. The default is use eight types of properties and lag = 30
^bThe number depends on the choice of the number of the set of amino acid properties and the choice of the λ value. The default is use three types of properties proposed by Chou et al. and λ = 30
^cThe number depends on the choice of the λ value. The default is that λ = 15

ISSN: 1758-2946