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peplib (version 1.03)

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.

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Version

Install

install.packages('peplib')

Monthly Downloads

6

Version

1.03

License

GPL (>= 2)

Maintainer

Andrew White

Last Published

October 9th, 2012

Functions in peplib (1.03)

classify

classify
AMPSequences.response

Antimicrobial peptide sequence responses
default.MetricParams

Default parameters for calculating sequence-sequence distances
blosum50

BLOSUM 50 substitution matrix
write.fasta

Write out the sequences as a FASTA file
read.sequences

Read sequence file
read.fasta

Read in sequences in FASTA format
BIC

Bayesian Information Content
changeClusterFormat

Change cluster format
write.sequences

Write out the sequences as a sequence file
aclust

aclust
MotifModelSet-class

Class "MotifModelSet"
defaultBaseMatrix

defaultBaseMatrix
blosum90

BLOSUM 90 substitution matrix
Sequences-class

Class "Sequences"
MetricParams-class

Class "MetricParams"
MotifModel-class

Class "MotifModel"
AMPSequences

Antimicrobial peptide sequences
TULASequences

TULA-2_Post peptide sequences
blosum62

BLOSUM 62 substitution matrix
SHP2Sequences

SHP-2_N-SH2 peptide sequences
simpleDescriptors

Function "simpleDescriptors"
Descriptors-class

Class "Descriptors"