Get mapping summary statistics from STAR
Value
A data frame with STAR summary stats for each sample containing the following variables (all numeric, except Sample):
Sample
total_reads
avg_input_read_length
uniquely_mapped
uniquely_mapped_percent
avg_mapped_read_length
num_splices
num_annotated_splices
num_GTAG_splices
num_GCAG_splices
num_ATAC_splices
num_noncanonical_splices
mismatch_rate
deletion_rate
deletion_length
insertion_rate
insertion_length
multimapped
multimapped_percent
multimapped_toomany
multimapped_toomany_percent
unmapped_mismatches_percent
unmapped_tooshort_percent
unmapped_other_percent
unmapped_mismatches
unmapped_tooshort
unmapped_other
Examples
star_dir <- system.file("extdata", package = "bears")
qc_table <- summary_stats_star(star_dir)