prepare_solo_samples: Title

In GrahamHamilton/pipelineTools: Pipeline Tools for NGS Sequence Analysis Pipelines

Title

Description

Reads in the sample file names for the directory or directories, for scRNA samples. Requires paired end reads.

Usage

prepare_solo_samples(path = path, patt)

Arguments

path	List of full paths to directory or directories containing the raw reads data
patt	List of suffix patterns for the raw reads data for forward and reverse reads

Value

Dataframe with sorted file paths and sample names

Examples

reads.path <- c("/Path to reads 1",
                "/Path to reads 2")

# Standard suffixes for reads files for forward and reverse files
reads.patt.1 <- "*_R1_001.fastq.gz$"
reads.patt.2 <- "*_R2_001.fastq.gz$"

sample.dataframe <- prepare_solo_samples(reads.path, c(reads.patt.1,reads.patt.2))

mate1 <- as.character(sample.dataframe$reads.path.1)
mate2 <- as.character(sample.dataframe$reads.path.2)

sample.names <- as.character(sample.dataframe$sample.names)

GrahamHamilton/pipelineTools documentation built on March 5, 2024, 12:23 p.m.