https://github.com/tanghaibao/bio-pipeline

My collection of light bioinformatics analysis pipelines for specific tasks
https://github.com/tanghaibao/bio-pipeline

ad-hoc experimental genomics open-source

Last synced: 4 months ago
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My collection of light bioinformatics analysis pipelines for specific tasks

• Host: GitHub
• URL: https://github.com/tanghaibao/bio-pipeline
• Owner: tanghaibao
• Created: 2010-04-27T01:05:43.000Z (about 16 years ago)
• Default Branch: main
• Last Pushed: 2024-05-20T05:56:12.000Z (about 2 years ago)
• Last Synced: 2025-12-13T11:43:27.504Z (7 months ago)
• Topics: ad-hoc, experimental, genomics, open-source
• Language: CAP CDS
• Homepage:
• Size: 4.23 MB
• Stars: 76
• Watchers: 7
• Forks: 31
• Open Issues: 0
• Metadata Files:
  • Readme: README.rst

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README

          
Bio-Pipeline

=============

A collection of light bioinformatics analysis pipelines for specific tasks.

* Synonymous calculation

* Blast nearby (given anchors, BLAST around local regions, useful for finding

  CNS)

* Lastz wrapper (print BLAST-tabular output, also parallelize the calculation)

* BioMart connector for Python

* Performing statistical test for gap deletion models

* Print feature sequences given GFF file and FASTA file (e.g. extracting CDS

  sequences)

Dive into specific folder to view more detailed usage on each application.