read_sequences_from_fastq: 'read_sequences_from_fastq'

In minSNPs: Resolution-Optimised SNPs Searcher

read_sequences_from_fastq

Description

read_sequences_from_fastq get the sequences from a fastq file, it completely ignores the quality scores

Usage

read_sequences_from_fastq(
  fastq_file,
  force_to_upper = TRUE,
  skip_n_reads = 0,
  max_n_reads = -1,
  output_quality = TRUE,
  quality_offset = 33,
  bp = MulticoreParam()
)

Arguments

fastq_file	location of the fastq file
force_to_upper	whether to transform sequences to upper case, default to TRUE
skip_n_reads	number of reads to skip, default to 0
max_n_reads	maximum number of reads to read, default to -1 (all)
output_quality	whether to output the quality scores, default to TRUE
quality_offset	the quality offset to use, default to 33
bp	BiocParallel backend to use for parallelization

Value

will return a list of sequences, with qualities as attribute

minSNPs documentation built on May 29, 2024, 2:48 a.m.