Release of BioHDF pipeline prototype
We are pleased to announce the release of the BioHDF pipeline prototype, built and tested using HDF5-1.8.4 Patch 1 (with the HDF5 1.6 compatibility flag). This release is intended to demonstrate the capability of HDF5 to store read, alignment, annotation and reference sequence data used in analyzing next-generation DNA sequencing (NGS) data. It is implemented as a set of command-line tools similar to samtools.
The BioHDF web page is located here:
This release and some sample data can be obtained from the BioHDF web page at:
This release was built and tested on 32- and 64-bit linux systems on x86/x64 hardware. It has not been tested on Windows though it is likely to work with Cygwin. It is available as source code only (no binaries).
NCList-based indexing for alignment hits and annotations, ensuring efficient and correct query results.
Feedback concerning BioHDF can be sent to Dana Robinson at:
derobins at hdfgroup.org
We would really like to hear from the NGS and functional genomics community so please send us your feedback!
- - Last modified: 14 October 2016