mamba create -c conda-forge -c bioconda -n snakemake_nanoclass python=3.9.7 snakemake=6.8.0 tabulate=0.8Installation
Install conda/mamba
To be able to run this workflow you need to have conda or mamba installed. If you do not have either of these, check out the installation instruction for conda. Since July 2023 conda comes with mamba installed and should be available when updating conda to v23.10.0.
If you only want to install mamba, follow the instructions found here.
Install snakemake
This workflow was developed using snakemake v6.8.0 and python3.9.7 and you might run into problems when using different versions, which is why we recommend installing snakemake as follows:
Install NanoClass2
NanoClass2 can be installed via git as follows:
git clone https://github.com/ndombrowski/NanoClass2.gitIf you don’t have or want to install git, you can also download NanoClass as follows:
- Go to https://github.com/ndombrowski/NanoClass2
- Click the green code button
- Download zip
- Extract zip