mergeData.Rd
This function executes the docker container ciri2merge by running the merge of different lists of circRNAs predicted by CIRI2 following a sample data files provided by the user. The function executes also a filter based on the number of back-splicing reads computed in each experiment and across replicates of the same biological condition.
mergeData( group = c("sudo", "docker"), scratch.folder, data.folder, samples.ids, covariates, covariate.order, extension, column_index )
group, | a character string. Two options: |
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scratch.folder, | a character string indicating the scratch folder where docker container will be mounted |
data.folder, | a character string indicating the data folder where the file to merge are located |
samples.ids, | a character vector indicating the identifiers of the samples |
covariates, | a character vector indicating the classes of the samples |
covariate.order, | a character vector indicating a vector reporting the covariate classes ordered as desidered in the output file |
extension, | a character string indicating the filename extension of the files that have to merge |
column_index, | an integer value > 1 indicating which column values have to been reported in the output file |
Two tab-delimited tables reporting the BS supporting reads and the coordinates of the filtered circRNAs are reported
if (FALSE) { }