phsc.read.likelytransmissions: Read likely transmissions summary files into a data.table

In olli0601/Phyloscanner.R.utilities:

Read likely transmissions summary files into a data.table

Description

This function reads likely transmissions summary files from the phyloscanner toolkit.

Usage

phsc.read.likelytransmissions(
  prefix.infiles,
  prefix.run = "ptyr",
  regexpr.lklsu = "trmStats.csv$",
  save.file = NA,
  resume = FALSE,
  zip = FALSE
)

Arguments

prefix.infiles	Full path name identifying likely transmissions summary files
prefix.run	Character string to identify separate phyloscanner runs. After the prefix, an integer number is expected. For example, if prefix.run='ptyr', then files are expected to start like 'ptyr123_'.
regexpr.lklsu	Regular expression that identifies likely transmissions summary files in the directory.
save.file	If not missing, function output (a data.table) will be stored to 'save.file', input files will be zipped, and input files will be deleted.
resume	If TRUE and save.file is not missing, the function loads and returns trees stored in save.file.

Value

Data table with columns PAIR_ID, ID1, ID2, TYPE, WIN_OF_TYPE, PTY_RUN, WIN_TOTAL, SCORE

olli0601/Phyloscanner.R.utilities documentation built on May 6, 2024, 8:11 p.m.