write.df_to_fastq: Write a FASTQ file from a dataframe of reads

In baseq: Basic Sequence Processing Tool for Biological Data

Write a FASTQ file from a dataframe of reads

Description

Write a FASTQ file from a dataframe of reads

Usage

write.df_to_fastq(df, output_dir = getwd())

Arguments

df	A dataframe containing reads in the format "Header", "Sequence", and "QualityScore".
output_dir	An optional argument specifying the directory where the FASTQ file should be saved. If not specified, the file will be saved in the working directory.

Value

A FASTQ file with the same name as the input dataframe.

Examples

#sample_file_path_two <- system.file("extdata", "sample_fq.fastq", package = "baseq")
#tempdir <- tempdir()
#temp_file_path <- file.path(tempdir, basename(sample_file_path_two))
#file.copy(sample_file_path_two, temp_file_path, overwrite = TRUE)
#read.fastq_to_df(sample_file_path_two)
#write.df_to_fastq(sample_fq, output_dir = tempdir)

# Write to working directory
# write.df_to_fastq(sample_fq)

# Write to custom directory
# write.df_to_fastq(sample_fq, output_dir = "/path/to/directory/")

baseq documentation built on May 3, 2023, 5:11 p.m.