count_barcodes_in_fastq: Match barcodes for a single fastq

Description Usage Arguments

View source: R/qc_functions.R

Description

Count barcode abundance, write out the counts of unmatched barcodes, return a data frame of counts of the given barcodes

Usage

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count_barcodes_in_fastq(
  trimmed_fastq,
  barcode_allele_df,
  temp_dir,
  verbose = TRUE
)

Arguments

trimmed_fastq

path to a trimmed fastq

barcode_allele_df

a data frame giving a mapping between barcodes and alleles

temp_dir

a character string giving the path to a directory to use for temporary intermediate files

verbose

logical indicating whether or not to print progress messages


andrewGhazi/malacoda documentation built on Aug. 2, 2020, 12:54 a.m.