Download the combined assembly summaries of genbank and refseq

Usage

combineFiles(
  inpath = c("../molevol_data/project_data/phage_defense/"),
  pattern = "*full_analysis.tsv",
  delim = "\t",
  skip = 0,
  col_names = T
)

Arguments

inpath: Character. The master directory path where the files reside. The search is recursive (i.e., it will look in subdirectories as well).
pattern: Character. A search pattern to identify files to be combined. Default is "*full_analysis.tsv".
delim: Character. The delimiter used in the input files. Default is tab ("").
skip: Integer. The number of lines to skip at the beginning of each file. Default is 0.
col_names: Logical or character vector. If TRUE, the first row of each file is treated as column names. Alternatively, a character vector can be provided to specify custom column names.

Value

A data frame containing the combined contents of all matched files. Each row will include a new column "ByFile" indicating the source file of the data.

Author

Janani Ravi

Examples

if (FALSE) { # \dontrun{
combined_data <- combineFiles(inpath = "../molevol_data/project_data/phage_defense/")
} # }