bam_stats

bam_stats outputs

{sample}.{movie}.read_length_and_quality.tsv.gz - per read length and quality metrics

{sample}.{movie}.read_length_and_quality.tsv.gz - per read length and quality metrics

Base metrics are extracted for each read from the uBAM and stored in these 4 columns:

• movie
• read name
• read length: length of query sequence
• read quality: transformation of rq tag into Phred (log) space, e.g., rq:f:0.99 (99% accuracy, 1 error in 100 bases) is Phred 20 ($-10 \times \log(1 - 0.99)$); this value is capped at Phred 60 for rq:f:1.0