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