PairHMM Application

This section presents brief introduction about PairHMM application and step by step guidelines to build and deployment.

Overview

PairHMM is an Open Source Genomics library* which provides high throughput and low latency. The Xilinx PairHMM application

is developed and tested on Xilinx Alveo U200 board.

Tested Tool: 2021.2
Tested XRT:  2021.2
Tested XSA:  xilinx_u200_xdma_201830_2

Executable Usage

This application is present under L3/demos/pairhmm/ directory. Follow build instructions to generate executable and binary.

The host executable generated is named as “xil_pairhmm” and it is generated in ./build directory.

Following is the usage of the executable:

To execute Single PairHMM kernel : ./build/xil_pairhmm ./build/xclbin_<xsa_name>_<TARGET mode>/pairhmm.xclbin --syn <number of tests>

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