Project of BI371 in Shanghai Jiao Tong University, a short read assigning method without comparison. Users can change the file paths in main function in kmm.py
and kmer.py
. And we will add some command line parameter and optimize the API of our program.
numpy
Bio
numba
Usage: python kmer.py
.
Usage: python kmm.py
.
Make sure your NVIDIA GPU support CUDA in advance. Set up the environment locally:
conda install numba
conda install cudatoolkit
CUDA Toolkit can also be downloaded from the website(https://developer.nvidia.com/cuda-toolkit)