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DESCRIPTION
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DESCRIPTION
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Package: TDAmut
Type: Package
Title: An R package for identification of relevant genetic alterations in cancer using topological data analysis
Version: 0.0.0
Author@R: c(person('Adam', 'Alghalith', email='aalgh@sas.upenn.edu', role=c('aut')),
person('Jake', 'Gurevitch', email='jakegure@sas.upenn.edu', role=c('aut'))
Author: Adam Alghalith [aut],
Jake Gurevitch [aut]
Maintainer: Pablo G. Cámara <pcamara@pennmedicine.upenn.edu>
Description: TDAmut is a pipeline for identifying candidate driver mutations and genetic alterations in
cancer from transcriptomic and genetic data. TDAmut constructs a network representation of the
expression subspace using TDAMapper, implements controls for spurious correlations between gene
expression and mutation, and assesses localization of genetic alterations using RayleighSelection.
License: GNU General Public License v3.0
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.2
LinkingTo:
Rcpp,
RcppArmadillo
Imports:
Rcpp,
igraph,
Matrix,
ggplot2,
dplyr,
purrr,
bioDist,
dimRed,
TDAmapper,
umap,
RayleighSelection,
cccd,
reshape2,
parallel