Description Usage Arguments Value
Calculate polymerase2 pausing index for every gene according to the inserted gene model file. Returns a list (name, size_tss, sum_tss, size_gb, sum_gb, geneNAme, TxName, chrom ,strand, txStart, txEnd, nr, dr, pi). With used filter duplicated and overlapping genes can be removed from list as well as non necessary columns. Returns a list (name, geneName, txName, chrom, strand, txStart, txEnd, nr, dr, pi, dif).
1 2 |
gm |
Gene model. File with information about the transcription start and end position of every gene. Default value is NULL. |
bw_files |
One or a character vector with multiple files in bigWig format. Default value is NULL. |
bw_path |
The path to directory where bwtool is installed on the computer. Default value is NULL. |
op_dir |
The path to the operation directory currently used. Default value is NULL. |
filter |
Filter which can be used to filter the output list to remove duplicated and overlapping genes as well as non necessary columns. Default value is TRUE. |
numcores |
Number of cores which should be used in parallelised process.Default value is NULL and will be defined as the number of available cores - 1. |
list (name, size_tss, sum_tss, size_gb, sum_gb, geneNAme, TxName, chrom ,strand, txStart, txEnd, nr, dr, pi). IF filter = TRUE : list (name, geneName, txName, chrom, strand, txStart, txEnd, nr, dr, pi, dif)
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