Learning Objectives

Installing Prokka

Code Block

language	bash
title	Conda installation

conda create -n GVA-prokka -c conda-forge -c bioconda -c defaults prokka
conda activate GVA-prokka

Code Block

language	bash
title	Check for correct installation and get review command line options

prokka --version
prokka --listdb
prokka --help

Panel

prokka 1.14.6

Looking for databases in: /work2/01821/ded/stampede2/miniconda3/envs/GVA-prokka/db

* Kingdoms: Archaea Bacteria Mitochondria Viruses

* Genera: Enterococcus Escherichia Staphylococcus

* HMMs: HAMAP

* CMs: Archaea Bacteria Viruses

help command should give list of options you are familiar with by now

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