xAtlas is a fast and scalable small variant caller that has been developed at the Baylor College of Medicine Human Genome Sequencing Center.
xAtlas requires the following software components to build:
- CMake (version 3.0 or higher required)
- HTSlib (version 1.6 or higher recommended)
- libpthread (included with most Unix-like systems)
xAtlas can be built using CMake by running the following commands from the base directory:
$ mkdir build
$ cd build
$ cmake ..
$ make
If HTSlib is installed in a location outside of CMake's library search path,
the HTSlib install prefix can be set for the CMake command by defining the
CMake variable HTSLIB_PREFIX:
$ cmake -DHTSLIB_PREFIX=/path/to/htslib-1.x ..
For example usage, see GettingStarted.