CRAM files are compressed versions of BAM files containing (aligned) sequencing reads. They represent a further file size reduction for this type of data that is generated at ever increasing quantities. Where SAM files are human-readable text files optimized for short read storage, BAM files are their binary equivalent, and CRAM files are a restructured […]
There are different ways to encode the quality scores in FASTQ files from Next-generation sequencing machines. This is important to find out before using the data and to convert between formats if necessary.
One of the most common question after your Next-Generation Sequencing (NGS) run is: “What is the coverage I achieved?” Unfortunately there a different definitions available for the term “coverage”.