HTSJDK is an implementation of a unified Java library for accessing common file formats, such as SAM and VCF, used for high-throughput sequencing data. There are also an number of useful utilities for manipulating HTS data.
Please see the HTSJDK Documentation for more information.
Not all sub-packages of htsjdk are subject to the same license, so a license notice is included in each source file or sub-package as appropriate. Please check the relevant license notice whenever you start working with a part of htsjdk that you have not previously worked with to avoid any surprises.
NOTE: Effective November 24th 2015, HTSJDK has ended support of Java 7 and previous versions. Java 8 is now required.
We will support all Java SE versions supported by Oracle until at least six months after Oracle's Public Updates period has ended (see this link).
| Java SE Major Release | End of Java SE Oracle Public Updates | Proposed End of Support in HTSJDK | Actual End of Support in HTSJDK |
|---|---|---|---|
| 6 | Feb 2013 | Aug 2013 | Oct 2015 |
| 7 | Apr 2015 | Oct 2015 | Oct 2015 |
| 8* | Mar 2017 | Sep 2017 | Sep 2017 |
- to be finalized