pssm_composition

pssm_name

<p>This feature, which stands for auto covariance transformation, for jth column calculates the average
of this column, and then subtracts the resulting number from the elements on the i and (i + g)th rows of this column,
and finally multiplies them. by changing the variable i from 1 to L-g, it calculates the sum of these, since the
variable j changes between 1 and 20, and the variable g between 1 and 20 eventually a feature vector of length 200
will be obtained.</p>

Returns almost all features that has been extracted from Position Specific
Scoring Matrix (PSSM) so far, which is a matrix of L rows (L is protein length)
and 20 columns produced by 'PSI-BLAST' which is a program to produce
PSSM Matrix from multiple sequence alignment of proteins
see <https://www.ncbi.nlm.nih.gov/books/NBK2590/> for mor details. some
of these features are described in Zahiri, J., et al.(2013)
<DOI:10.1016/j.ygeno.2013.05.006>,
Saini, H., et al.(2016)
<DOI:10.17706/jsw.11.8.756-767>,
Ding, S., et al.(2014)
<DOI:10.1016/j.biochi.2013.09.013>,
Cheng, C.W., et al.(2008)
<DOI:10.1186/1471-2105-9-S12-S6>,
Juan, E.Y., et al.(2009)
<DOI:10.1109/CISIS.2009.194>.

pssm_composition: PSSM-COMPOSITION feature

Description

Usage

Arguments

Value

References

Examples