Install

SemiBin can run on Python 3.7-3.9.

Install from bioconda

Simple Mode

The simplest way to install is to use conda.

conda create conda create -n SemiBin
conda activate SemiBin
conda install -c conda-forge -c bioconda semibin

GPU mode from conda

If you want to use SemiBin with GPU, you need to install Pytorch with GPU support.

conda create conda create -n SemiBin
conda activate SemiBin
conda install -c conda-forge -c bioconda semibin
conda install pytorch torchvision torchaudio cudatoolkit=10.2 -c pytorch-lts

Install from source

You will need the following dependencies: - MMseqs2 - Bedtools, Hmmer - Prodigal - (optionally) Fraggenescan

conda install -c conda-forge -c bioconda mmseqs2=13.45111

conda install -c bioconda bedtools hmmer fraggenescan

python setup.py install