Parse nextflow samplesheet for sample inputs
Source:R/nextflow_annotation_utils.R
map_sample_input_ss.RdSamplesheets are used in rnaseq pipelines, defined here: https://nf-co.re/rnaseq/usage#full-samplesheet.
After the pipeline is run, it should be found in an output folder called pipeline_info.
This is a simple helper to get a mapping of sample ids to input files (either one-to-many or one-to-one) as a table.
Usage
map_sample_input_ss(
samplesheet,
parse_fun = function(x) gsub("_T[0-9]$", "", x)
)