Protein Sequence Observation Tool

A tool that executes several bioinformatic tools for a set of protein sequences. The results of all tools are converted into json documents, enabling for simple post processing.

Getting started (Setup)

Prerequisites:

• git
• python3
• nextflow

Supported bioinformatic tools:

• hmmer
• blastp
• signalp
• ghostx
• targetp

Install nextflow:

curl -fsSL get.nextflow.io | bash 

Checkout the repository:

git clone git@git.computational.bio.uni-giessen.de:SOaAS/psot.git

Configuration

In the installation directory is a config.yaml file, that is used to override the paths to the bioinformatic tools and that is used to specify the available profiles.

TODO write more about the structure of a profile

How to create a new module?

TODO write what is a module TODO write about module configuration