Welcome to use KMC1D to calculate Main Effect Kinship Matrix. In this repository, except this README file, you also should see another INSTALL md file for instructions to compile the source code; a PDF file for user manual to run KMC1D; a sub-directory: Source_Code, which you can compile into a binary KMC1D execute command; One zipped file: Simulated_Data.zip, which should be unzipped at first, and by which you can play with a series of simulated genotypic matrix data with dimension of m rows(markers)x n columns (individuals); and another zipped file Run_Test.zip, which should be unzipped at first and by which you can test the availability of GPU hardware environment, CUDA-Nvidia software Toolkits, Packages, and tentatively Run your data at bash shell model.
Essentially, KMC1D only runs on a CUDA-capable GPU Linux Server. Here, we provide three methods for you (See the User Manual). You can run the pipeline on our hosting GPU sever, or download the source code, compile and run it on your CUDA-capable GPU server.
If you have any questions, comments, or feedback, please feel free to contact the development team (bioinfo AT noble.org) or the first author (wezhang AT noble.org).