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ask.bioexcel.eu is a forum to support the community for computational biomolecular research in academia and industry, with particular focus on biomolecular simulation and modelling and using high-performance computing (HPC) and high-throughput computing (HTC).

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Packages

Below you can find the list of all the packages and a link to their corresponding contact section in GitHub:

biobb_amber

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biobb_analysis

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biobb_chemistry

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biobb_cmip

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biobb_common

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biobb_cp2k

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biobb_dna

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biobb_flexdyn

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biobb_flexserv

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biobb_godmd

Open new issue for biobb_godmd package
biobb_gromacs

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biobb_io

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biobb_md

Open new issue for biobb_md package
biobb_ml

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biobb_model

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biobb_pdb_tools

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biobb_pmx

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biobb_structure_utils

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biobb_vs

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Workflows

Below you can find the list of all the workflows and a link to their corresponding contact section in GitHub:

GROMACS Protein MD Setup

Open new issue for GROMACS Protein MD Setup workflow
Automatic Ligand parameterization

Open new issue for Automatic Ligand parameterization workflow
GROMACS Protein-Ligand Complex MD Setup

Open new issue for GROMACS Protein-Ligand Complex MD Setup workflow
Mutation Free Energy Calculations

Open new issue for Mutation Free Energy Calculations workflow
Protein-ligand Docking (Cluster90)

Open new issue for Protein-ligand Docking (Cluster90) workflow
Protein-ligand Docking (PDBe REST-API)

Open new issue for Protein-ligand Docking (PDBe REST-API) workflow
Protein-ligand Docking (fpocket)

Open new issue for Protein-ligand Docking (fpocket) workflow
Molecular Interaction Potentials

Open new issue for Molecular Interaction Potentials workflow
Protein conformational ensembles generation

Open new issue for Protein conformational ensembles generation workflow
Macromolecular Coarse-Grained Flexibility

Open new issue for Macromolecular Coarse-Grained Flexibility workflow
Protein conformational transitions calculations

Open new issue for Protein conformational transitions calculations workflow
AMBER Protein MD Setup

Open new issue for AMBER Protein MD Setup workflow
AMBER Protein-ligand complex MD Setup

Open new issue for AMBER Protein-ligand complex MD Setup workflow
AMBER Constant pH MD setup

Open new issue for AMBER Constant pH MD setup workflow
ABC MD Setup

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Structural DNA helical parameters

Open new issue for Structural DNA helical parameters workflow
Molecular Structure Checking

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{···} REST API

Click the button below and open a new BioBB REST API issue:

Open new issue in BioBB REST API GitHub

BioBB Workflows

Click the button below and open a new BioBB Workflows website issue:

Open new issue in the BioBB Workflows website

Generic contact

Only in case your request is not related to some of the previous subjects, click the button below to open a generic issue:

Open new issue in BioBB GitHub