preprocess MSstats fragpipe
Usage
preprocess_MSstats_FPDIA(
quant_data,
fasta_file,
annotation,
pattern_contaminants = "",
pattern_decoys = "",
hierarchy_depth = 1
)
Arguments
- quant_data
path to MSstats csv file
- fasta_file
path to fasta file(s)
- annotation
annotation list from read_annotation
- pattern_contaminants
regex pattern for contaminants
- pattern_decoys
regex pattern for decoys
- hierarchy_depth
hierarchy depth for aggregation