https://github.com/biocomputingup/mobidb-lite_docker

Science Score: 13.0%

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Last synced: 9 months ago · JSON representation

Repository

Basic Info

Host: GitHub
Owner: BioComputingUP
License: gpl-3.0
Language: Dockerfile
Default Branch: master
Size: 114 KB

Statistics

Stars: 0
Watchers: 6
Forks: 4
Open Issues: 0
Releases: 0

Created almost 6 years ago · Last pushed over 1 year ago

Metadata Files

Readme License

README.md

MobiDB-lite Docker

MobiDB-lite is a lightweight tool for predicting intrinsic disorder in proteins. This guide explains how to build and use the Dockerized version of MobiDB-lite 4.0

Building the Docker image

Before running the tool, you need to build the Docker image.

Step 1: clone this repository

git clone https://github.com/BioComputingUP/MobiDB-lite_docker.git
cd MobiDB-lite_docker

Step 2: Build the Docker image

docker build -t mobidb-lite .

This creates a Docker image named mobidb-lite

Pulling the Docker image from docker hub

Alternatively you can find the docker image here.

Running MobiDB-lite in Docker

Once the image is built, you can use it to analyze multi-fasta files.

Basic usage

docker run --rm -v $PWD:/data mobidb-lite [options] [input_file] [output_file]

Note: It is better to use the option "--force" , so that even if any of the predictors fail, the consensus is still calculated.

Example:

docker run --rm -v $PWD:/data mobidb-lite --force /data/example/first10sp.fasta /data/example/output.tsv

To calculate the ensemble properties, you must specify --extra option with --format mobidb:

docker run --rm -v $PWD:/data mobidb-lite --force --extra --format mobidb /data/example/first10sp.fasta /data/example/output.mjson

Owner

Name: BioComputing Group, University of Padova
Login: BioComputingUP
Kind: organization
Email: biocomp@bio.unipd.it
Location: Italy

Website: https://biocomputingup.it/
Repositories: 31
Profile: https://github.com/BioComputingUP

GitHub Events

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Push event: 6
Create event: 2

Last Year

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Create event: 2

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Last synced: about 1 year ago

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Total pull requests: 1
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