Medaka¶

Description¶

Medaka demonstrates a framework for error correcting sequencing data, particularly aimed at nanopore sequencing. Tools are provided for both training and inference. The code exploits the keras deep learning library. The framework provided has had limited testing and benchmarking, but it is being released in an effort to allow researchers to experiment without having to write much of the tedious data preparation code. Researchers can extend the tools provided to achieve better results that those obtained currently.

Environment Modules¶

Run module spider medaka to find out what environment modules are available for this application.

Environment Variables¶

HPC_MEDAKA_DIR - installation directory
HPC_MEDAKA_BIN - executable directory

Categories¶

biology, phylogenetics