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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.

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Version

Install

install.packages('peplib')

Monthly Downloads

30

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