DESCRIPTION

Package: hahmmr
Title: Haplotype-Aware Hidden Markov Model for RNA
Version: 1.0.0
Authors@R: 
    c(person("Teng", "Gao", email = "tgaoteng@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-0196-689X")),
    person("Evan", "Biederstedt", email = "evan.biederstedt@gmail.com", role="aut"),
    person("Peter", "Kharchenko", email = "peter_kharchenko@hms.harvard.edu", role = "aut"))
Description: Haplotype-aware Hidden Markov Model for RNA (HaHMMR) is a method for detecting copy number variations (CNVs) from bulk RNA-seq data. Additional examples, documentations, and details on the method are available at <https://github.com/kharchenkolab/hahmmr/>.
Depends: 
    R (>= 4.1.0)
biocViews:
Imports:
    data.table,
    dplyr,
    GenomicRanges,
    ggplot2,
    glue,
    IRanges,
    methods,
    patchwork,
    Rcpp,
    stringr,
    tibble,
    zoo
Suggests:
    ggrastr,
    testthat
LinkingTo: Rcpp, RcppArmadillo, roptim
NeedsCompilation: yes
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
LazyData: true