outputLibs {ORFik} | R Documentation |
Variable names defined by df (ORFik experiment DataFrame) Uses multiple cores to load, defined by multicoreParam
outputLibs( df, chrStyle = NULL, type = "default", envir = .GlobalEnv, BPPARAM = bpparam() )
df |
an ORFik |
chrStyle |
a GRanges object, or a |
type |
a character(default: "defualt"), load files in experiment or some precomputed variant, either "bedo" or "pshifted". These are made with ORFik:::simpleLibs() |
envir |
environment to save to, default (.GlobalEnv) |
BPPARAM |
how many cores? default: bpparam() |
NULL (libraries set by envir assignment)
Other ORFik_experiment:
bamVarName()
,
create.experiment()
,
experiment-class
,
libraryTypes()
,
read.experiment()
,
save.experiment()
,
validateExperiments()
# 1. Pick directory dir <- system.file("extdata", "", package = "ORFik") # 2. Pick an experiment name exper <- "ORFik" # 3. Pick .gff/.gtf location txdb <- system.file("extdata", "annotations.gtf", package = "ORFik") template <- create.experiment(dir = dir, exper, txdb = txdb, viewTemplate = FALSE) template$X5[6] <- "heart" # <- fix non unique row # read experiment df <- read.experiment(template) # Output to .GlobalEnv with: # outputLibs(df)