read.multi: Read multiple files

In metamicrobiomeR: Microbiome Data Analysis & Meta-Analysis with GAMLSS-BEZI & Random Effects

Description

This function reads multiple files of the same pattern in a directory into R.

Usage

read.multi(
  patht,
  patternt = ".txt",
  assignt = "no",
  study = NULL,
  tolower.colnames = TRUE
)

Arguments

patht	path to files.
patternt	pattern of files. Options are ".txt" or ".csv".
assignt	assign files. Default is "no".
study	name of the study. Default is NULL.
tolower.colnames	turn all column names to lower case. Default is TRUE.

Value

list of all data files in the path

Examples

# The data used for this example are available
# in the "metamicrobiomeR" package version in Github.
# Download example data from the package github repo
#setwd("your directory") #put your working directory inside the quotation marks
download.file(url = "https://github.com/nhanhocu/metamicrobiomeR/archive/master.zip",
destfile = "metamicrobiomeR-master.zip")
# unzip the .zip file
unzip(zipfile = "metamicrobiomeR-master.zip")
patht<-paste(getwd(),
"metamicrobiomeR-master/inst/extdata/QIIME_outputs/Bangladesh/alpha_div_collated", sep="/")
alpha.ba<-read.multi(patht=patht,patternt=".txt", assignt="no",study="Bangladesh")

metamicrobiomeR documentation built on Nov. 9, 2020, 5:06 p.m.