Learn R Programming

peplib (version 1.5.1)

Peptide Library Analysis Methods

Description

This package provides a variety of methods for dealing with analysis of peptide library data, including clustering, motif finding, and QSAR model fitting.

Copy Link

Version

Install

install.packages('peplib')

Monthly Downloads

21

Version

1.5.1

License

GPL (>= 2)

Maintainer

Andrew White

Last Published

April 15th, 2013

Functions in peplib (1.5.1)

SHP2Sequences

SHP-2_N-SH2 peptide sequences
blosum50

BLOSUM 50 substitution matrix
read.sequences

Read sequence file
blosum90

BLOSUM 90 substitution matrix
Sequences-class

Class "Sequences"
write.sequences

Write out the sequences as a sequence file
MotifModelSet-class

Class "MotifModelSet"
simpleDescriptors

Function "simpleDescriptors"
AMPSequences

Antimicrobial peptide sequences
AMPSequences.response

Antimicrobial peptide sequence responses
blosum62

BLOSUM 62 substitution matrix
MetricParams-class

Class "MetricParams"
defaultBaseMatrix

defaultBaseMatrix
read.fasta

Read in sequences in FASTA format
classify

classify
default.MetricParams

Default parameters for calculating sequence-sequence distances
MotifModel-class

Class "MotifModel"
Descriptors-class

Class "Descriptors"
aclust

aclust
BIC

Bayesian Information Content
write.fasta

Write out the sequences as a FASTA file
TULASequences

TULA-2_Post peptide sequences
changeClusterFormat

Change cluster format