Read ORFik experiment

Description

Read in runs / samples from an experiment as a single R object. To read an ORFik experiment, you must of course make one first. See create.experiment The file must be csv and be a valid ORFik experiment

Usage

read.experiment(file)

Arguments

Value

an ORFik experiment

See Also

Other ORFik_experiment: bamVarName(), create.experiment(), experiment-class, libraryTypes(), outputLibs(), save.experiment(), validateExperiments()

Examples

# From file
## Not run: 
# Read from file
df <- read.experiment(filepath) # <- valid .csv file

## End(Not run)
# Read from (create.experiment() template)
# 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 from template
df <- read.experiment(template)

# To save it, do:
# save.experiment(df, file = "path/to/save/experiment.csv")