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Annotates genes on putative phage contigs with a database of hidden markov models (HMMs) based on PHROGs. This tool was built to support visual confirmation of predictions made by Jeager.

installation

1. clone the repository git clone https://github.com/Yasas1994/phage_contig_annotator.git && cd phage_contig_annotator
2. download hmmdb wget https://nextcloud.uni-greifswald.de/index.php/s/w2pgjQXdifsCtGA/download/databases.zip
3. unzip hmmdb unzip databases.zip -d databases && rm databases.zip
4. create a conda environment conda env create -f environment.yml

usage

conda activate phage_contig_annotator 
python cli.py --input input_fasta_file_with_contigs --output output_dir

examples