writeInteractionSubsetFASTA_list: Write InteractionSubsetFASTA_list into directory system...

In vitkl/SLIMFinderR: Short Linear Motif Search Using QSLIMFinder, Protein Interaction Network and Binding Domain Inference

Description

Write InteractionSubsetFASTA_list into directory system (creating directories as necessary) and return file locations for QSLIMFinder

Usage

writeInteractionSubsetFASTA_list(interactionFASTA_list,
  dir = "./SLIMFinder/", analysis_type = c("qslimfinder",
  "slimfinder")[1])

Arguments

interactionFASTA_list	object of class InteractionSubsetFASTA_list created by listInteractionSubsetFASTA, and (potentially) filtered using filterInteractionSubsetFASTA_list or domainProteinPairMatch
dir	directory where to write interactionFASTA_list
analysis_type	character 1L, qslimfinder or slimfinder. slimfinder doesn't need query: identical datasets with the same query will be removed and query files not written)

Value

data.table containing path to files and directories for QSLIMFinder: fastafile, queryfile, outputdir, outputfile

Author(s)

Vitalii Kleshchevnikov

See Also

listInteractionSubsetFASTA

Examples

forSLIMFinder_file_list = writeInteractionSubsetFASTA_list(interactionFASTA_list = forSLIMFinder_Ready,
                           dir = "./SLIMFinder/")

vitkl/SLIMFinderR documentation built on May 3, 2019, 8:08 p.m.