getSGFeatureCountsPerSample {SGSeq} | R Documentation |
Obtain counts of compatible fragments for splice graph features.
getSGFeatureCountsPerSample(features, file_bam, paired_end, sample_name, min_anchor, retain_coverage, verbose, cores)
features |
|
file_bam |
BAM file with genomic RNA-seq read alignments |
paired_end |
Logical, |
sample_name |
Sample name used in messages |
min_anchor |
Integer specifiying minimum anchor length |
retain_coverage |
Logical indicating whether coverage for each
exon should be retained as an |
verbose |
If |
cores |
Number of cores available for parallel processing |
Numeric vector of compatible fragment counts
Leonard Goldstein