Usage of phage_quality.snakefile

[Carlus Deneke]

Hi,

I am interested in using the phage_quality.snakefile pipeline: https://github.com/linsalrob/EdwardsLab/blob/master/phage/phage_quality.snakefile

In the config file, several databases are mentioned. Can you point me where to get these databases?

Apart from the requirements mentioned:

2. phanotate.py

3. transeq from EMBOSS

4. blastp

5. blastx (not yet required ... may use diamond)

1. phage_quality_config.yaml -- the configuration file

What else is needed to run the pipeline?Which snakmake versions, python dependencies, sql etc?

Thanks, the pipeline lools really promising

Carlus