https://github.com/applicativesystem/rust-pangenome-matcher

rust pangenome matcher
https://github.com/applicativesystem/rust-pangenome-matcher

bioinformatics genome-alignment genome-analysis genome-bioinformatics pangenome-alignment pangenomic-analysis pangenomics

Last synced: 7 days ago
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rust pangenome matcher

• Host: GitHub
• URL: https://github.com/applicativesystem/rust-pangenome-matcher
• Owner: applicativesystem
• License: mit
• Created: 2024-12-10T19:18:07.000Z (12 days ago)
• Default Branch: main
• Last Pushed: 2024-12-11T17:34:05.000Z (11 days ago)
• Last Synced: 2024-12-11T18:26:38.000Z (11 days ago)
• Topics: bioinformatics, genome-alignment, genome-analysis, genome-bioinformatics, pangenome-alignment, pangenomic-analysis, pangenomics
• Language: Rust
• Homepage:
• Size: 3.44 MB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# rust-pangenome-tools

 - writing all pangenome tools in rust. 

 - This part compares the two pangenome alignment with the same query and a different reference and anchors the query across both. 

 - general note: Incase of Golang and RUST, please see the last commit message and if it says compiled binary then it is completed or else still in development version.

 ```

 cargo build

 

 ```

 λ gauravsablok rust-pangenome-matcher → λ git main* → ./target/debug/rust-pangenome-matcher -h

 Usage: rust-pangenome-matcher  

 

 Arguments:

    please provide the path to the first alignment file

    please provide the path to the second alignment file

 Options:

  -h, --help     Print help

  -V, --version  Print version

 ```

 ```

 - to run the binary

 ```

λ gauravsablok rust-pangenome-matcher → λ git main* → ./target/debug/rust-pangenome-matcher ./sample-files/test1.paf ./sample-files/test2.paf

The comparative reference files have been written

The comparative query files have been written

The pangenome matcher has produced the results: The pangenome alignments have been parsed and the comparative results have been written

 ```

 Gaurav Sablok