LowMACA: LowMACA - Low frequency Mutation Analysis via Consensus Alignment

The LowMACA package is a simple suite of tools to investigate and analyze the mutation profile of several proteins or pfam domains via consensus alignment. You can conduct an hypothesis driven exploratory analysis using our package simply providing a set of genes or pfam domains of your interest.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("LowMACA")
AuthorStefano de Pretis , Giorgio Melloni
Bioconductor views Alignment DataImport MultipleSequenceAlignment SequenceMatching Sequencing SomaticMutation WholeGenome
Date of publicationNone
MaintainerStefano de Pretis <ste.depo@gmail.com>, Giorgio Melloni <melloni.giorgio@gmail.com>
LicenseGPL-3
Version1.8.0

View on Bioconductor

Functions

alignSequences Man page
alignSequences,LowMACA-method Man page
allPfamAnalysis Man page
BLOSUM62 Man page
bpAll Man page
bpAll,LowMACA-method Man page
entropy Man page
entropy,LowMACA-method Man page
getMutations Man page
getMutations,LowMACA-method Man page
lfm Man page
lfm,LowMACA-method Man page
lfmSingleSequence Man page
lfmSingleSequence,LowMACA-method Man page
lmAlignment Man page
lmAlignment,LowMACA-method Man page
lmEntropy Man page
lmEntropy,LowMACA-method Man page
lmMutations Man page
lmMutations,LowMACA-method Man page
lmObj Man page
lmParams Man page
lmParams<- Man page
lmParams<-,LowMACA-method Man page
lmParams,LowMACA-method Man page
lmPlot Man page
lmPlot,LowMACA-method Man page
lmPlotSingleSequence Man page
lmPlotSingleSequence,LowMACA-method Man page
LowMACA Man page
LowMACA_AML Man page
LowMACA-class Man page
LowMACA-package Man page
mapMutations Man page
mapMutations,LowMACA-method Man page
newLowMACA Man page
nullProfile Man page
nullProfile,LowMACA-method Man page
parallelize Man page
parallelize<- Man page
parallelize<-,LowMACA-method Man page
parallelize,LowMACA-method Man page
protter Man page
protter,LowMACA-method Man page
setup Man page
setup,LowMACA-method Man page
show,LowMACA-method Man page
showTumorType Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.