Capabilities
============

.. toctree::
   :maxdepth: 1

   Compression <compression>
   Archiving <archiving>
   Encryption <encryption>
   Dual-coordinate VCF (DVCF) <dvcf>
   Filtering BAM or FASTQ reads by species using kraken2 <kraken>
   Downsampling and sharding <downsampling>
   Fixing contigs names (eg chr22 ⇆ 22) <match-chrom>
   Converting SAM/BAM to FASTQ <sam2fq>
   Converting a 23andMe 'Raw Genetic File' to VCF <23andMe2vcf> 
   Converting MultiFASTA to Phylip and back <multifasta2phylip>
   Per-contig coverage <coverage>
   Sex assignment <sex-assignment>
   idxstats <idxstats>