Package index

All functions

bam_count()

Count BAM records with Bioconductor-compatible filtering

bam_coverage()

Per-base coverage, aggregated in C++

bam_coverage_bigwig()

Write per-base coverage to a bigWig, computed in C++

bam_read()

Fast BAM reading with Bioconductor-compatible arguments

decode_compact_qual()

Decode compact BamScale quality output

decode_compact_seq()

Decode compact BamScale sequence output

decode_seqqual_compact()

Decode compact seq and qual columns in BamScale output

fragment_sizes()

Fragment-size distribution, aggregated in C++

mapq_dist()

Mapping-quality (MAPQ) distribution, aggregated in C++