bioleach-balrog 0.0.7

Bioleaching microbial community

bioleach-balrog

An alternate version of bioleach that uses the machine-learning based method balrog for gene prediction.

In general, refer to the bioleach documentation , as usage of bioleach-balrog is identical to bioleach except that it substitutes Balrog for Prodigal in the gene prediction step.

See documentation specific to bioleach-balrog here: bioleach-balrog documentation.

Installation

The suggested method for installing bioleach-balrog is via pip in a dedicated conda environment

conda create -n bioleach -c conda-forge -c bioconda \
  pandas seaborn biopython sra-tools pysradb \
  mysql-connector-python sqlalchemy fastp kraken2 bowtie2 \
  samtools megahit prodigal numpy=2.3 pytorch mmseqs2 balrog
pip install bioleach-balrog

After installing, confirm you have the latest version

bioleach-balrog --version