Miscellaneous Installation Methods


Note that at the moment, only the CPU version of f5c can be installed through Docker or Conda. If you have experience with nvidia docker or setting up CUDA enabled programmes on Conda, help us to set f5c GPU version up on those.

Installing Docker Image

To build a docker image

git clone https://github.com/hasindu2008/f5c && cd f5c
docker build .

Note down the image uuid and run f5c as :

docker run -v /path/to/local/data/data/:/data/ -it :image_id  ./f5c call-methylation -r /data/reads.fa -b /data/alignments.sorted.bam -g /data/ref.fa

Installing through Conda

To install through Conda

conda create -n ont_env -c bioconda -c conda-forge f5c