https://github.com/applicativesystem/phylogenomics-apptainer

apptainer image for complete phylogenomics and evolutionary analysis
https://github.com/applicativesystem/phylogenomics-apptainer

apptainer apptainer-container devops devops-platform devops-team high-performance-computing phylogenomics phylogenomics-bioinformatics

Last synced: 23 days ago
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apptainer image for complete phylogenomics and evolutionary analysis

• Host: GitHub
• URL: https://github.com/applicativesystem/phylogenomics-apptainer
• Owner: applicativesystem
• License: mit
• Created: 2024-09-30T20:26:28.000Z (3 months ago)
• Default Branch: main
• Last Pushed: 2024-10-17T05:54:05.000Z (3 months ago)
• Last Synced: 2024-11-10T20:18:16.004Z (about 2 months ago)
• Topics: apptainer, apptainer-container, devops, devops-platform, devops-team, high-performance-computing, phylogenomics, phylogenomics-bioinformatics
• Homepage:
• Size: 2.93 KB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# phylogenomics-apptainer 

- a apptainer for the phylogenomics

- it contains all the applications combined in a single container for the phylogenomics.

- it incldues orthofinder, astral, trimal, alignmentGO, raxml and clipkit. 

- all the applications required for the genome analysis and genome or gene based phylogenomics.  

```

apptainer exec phylogenomics.def

Given an folder of the fasta file you can invoke the apptainer as

apptainer run phylogenomics.sif orthofinder PATH-FASTA-FOLDER

apptainer run phylogenomics.sif astral -h

apptainer run phylogenomics.sif trimal -h

apptainer run phylogenomics.sif alignmentGO -h

apptainer run clipkit -h

```

Gaurav Sablok