summarise_experimentFiles {rSHAPE}

This function will find all initially processed output files from individual replicates and return summary information. That information is saved to an RData file which will contain 3 objects: all_proccessedFiles, all_jobInfo, all_dividedFiles

Description

This function will find all initially processed output files from individual replicates and return summary information. That information is saved to an RData file which will contain 3 objects: all_proccessedFiles, all_jobInfo, all_dividedFiles

Usage

  summarise_experimentFiles(func_experimentDir = getOption("shape_workDir"),
  func_saveFile = getOption("shape_procExp_filenames")["fileList"],
  func_search_filePattern = getOption("shape_processedData_filePattern"),
  func_sepString = getOption("shape_sepString"))

Arguments

func_experimentDir

This is the filepath to the root directoy under which all your experimental files can be found.

func_saveFile

This is the filepath and filename (ending in .RData please) to which the results of this step will be saved.

func_search_filePattern

This is a string which can be used to search and find the files which relate to the processed output of individual replicates rSHAPE runs.

func_sepString

This is the character string which was used for commonly collapsing elements in the rSHAPE run.

Note

There is no example as this cannot work without a complete rSHAPE experiment to be analysed.