csv2envs: utility to create hashtables (environments) linking...

In vjcitn/htxapp: prototype of metadata-driven selection in HumanTranscriptomeCompendium

Description

utility to create hashtables (environments) linking study/experiment/keyword for use in searching metadata related to HumanTranscriptomeCompendium elements

Usage

csv2envs(csv, envset = NULL, expenv = new.env(hash = TRUE),
  studenv = new.env(hash = TRUE), cleanFields = list(".*id$", ".name$",
  "_name$"))

Arguments

csv	character(1) path to a CSV-formated file assumed to have fields study.accession, experiment.accession
envset	a list of environments with elements expenv, studenv, kwexenv, kwstenv
expenv	an environment
studenv	an environment
cleanFields	a list with regular expressions as elements; fields matching elements of the list will not contributes tokens for searching

Note

Purpose is to create and add content to maps between tokens in metadata and the studies and experiments that bear them. "Stopwords" are removed.

vjcitn/htxapp documentation built on May 20, 2019, 12:37 p.m.