CRAM is a more highly compressed alternative to the BAM and SAM DNA sequence alignment file formats.
See http://www.ebi.ac.uk/ena/software/cram-toolkit for the EBI’s documentation. Typically CRAM achieves 40-50% space saving over the alternative BAM format. The CRAM specification can be found at the http://samtools.github.io/hts-specs/ page along with related formats.
Packages supporting the CRAM format include Samtools/Htslib, Scramble, Cramtools and Picard/Htsjdk. Please download one of those to get support for the file format.
If you need help or have any queries, please contact us using the details below.
A generic email list is shared for all associated alignment formats at firstname.lastname@example.org or use the tool specific github pages for submitting issues.