In tienmt/coher: coheritability estimation

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "inst/vignette-supp/",
  echo=TRUE, 
  warning=FALSE, 
  message=FALSE,
  tidy=TRUE
)

coher

An R package for the estimation of co-heritability of phenotypic traits in bacteria.

Installation

The development version is available on github. It can be installed with devtools

install.packages("remotes")

remotes::install_github("tienmt/coher")

If you would like to also build the vignette with your installation run:

remotes::install_github("tienmt/coher", build_vignettes = TRUE)

Quick Start

Run coher

# install.packages("coher")
library(coher)

data('coher_example')
result <- coher(coher_example$Y, coher_example$X)

intro_rmd <- 'vignettes/introduction.Rmd'

raw_rmd <- readLines(intro_rmd)

# remove yaml 
yaml_lines <- grep("---", raw_rmd)

# remove appendix (session info)
appendix <- grep("Session", raw_rmd)

compressed_rmd <- raw_rmd[c(-seq(yaml_lines[1], yaml_lines[2], by = 1), 
                            -seq(appendix, length(raw_rmd)))]
writeLines(compressed_rmd, "child.Rmd")

if (file.exists("child.Rmd")) {
  file.remove("child.Rmd")
}

tienmt/coher documentation built on Dec. 15, 2021, 6:59 a.m.