PAVFinder v1.7.0 – Post Assembly VariantFinder

PAVFinder v1.7.0

:: DESCRIPTION

PAVFinder is a Python package that detects genomic rearrangements from whole-genome shotgun assemblies and transcriptomic events such as gene fusions, internal tandem duplications, partial tandem duplications, and novel splice variants from RNA-seq assemblies.

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::DEVELOPER

BC Cancer Canada’s Michael Smith Genome Sciences Centre

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows
  • Python

:: DOWNLOAD

PAVFinder 

:: MORE INFORMATION

Citation

Chiu R, Nip KM, Birol I.
Fusion-Bloom: fusion detection in assembled transcriptomes.
Bioinformatics. 2020 Apr 1;36(7):2256-2257. doi: 10.1093/bioinformatics/btz902. PMID: 31790154; PMCID: PMC7141844.

Chiu R, Nip KM, Chu J, Birol I.
TAP: a targeted clinical genomics pipeline for detecting transcript variants using RNA-seq data.
BMC Med Genomics. 2018 Sep 10;11(1):79. doi: 10.1186/s12920-018-0402-6. PMID: 30200994; PMCID: PMC6131862.

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