CulebrONT
1.7.0
About CulebrONT
From assembly to correction
Assembly
Optional circularisation
Polishing
Correction
Quality on assemblies
Install
Requirements
Steps for LOCAL installation
1. Pull the build docker virtual machine and obtain test dataset
2. Run the docker container
3. Create a pipeline using the config.yaml file
4. Use a dataset to test CulebrONT install
Using a standard Snakemake command line (local)
Or using a submit_culebront.sh script (local)
Steps for HPC installation
1. How to configure tools_path.yaml
How to build singularity images
2. Preparing
cluster_config.yaml
3. Snakemake profiles
4. Export CulebrONT to PATH
5. Check install
Using a standard Snakemake command line (HPC)
Or using a submit_culebront.sh script (HPC)
Rules inside CulebrONT
Defining Workflows
How to create a workflow
1. Providing data
2. Choose assemblers, polisher and correctors
3. Choose quality tools
4. Parameters for some specific tools
How to run the workflow
Running in a local machine
Running in a HPC
Output on CulebrONT
Report
Project Info
Citation
Useful notes
Thanks
License
FAQ
Frequently Asked Questions
CulebrONT
Docs
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v: 1.7.0
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