A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
View the Project on GitHub broadinstitute/picard
This utility makes it easy to identify what are the properties of a read based on its SAM flag value, or conversely, to find what the SAM Flag value would be for a given combination of properties.
To decode a given SAM flag value, just enter the number in the field below. The encoded properties will be listed under Summary below, to the right.
To find out what the SAM flag value would be for a given combination of properties, tick the boxes for those that you'd like to include. The flag value will be shown in the SAM Flag field above.