FunGAP

FunGAP is a software tool that helps identify protein-coding genes in a fungal genome assembly. It combines multiple gene predictors, evaluates predicted genes, and creates gene models based on homology to known sequences. It uses a scoring system to assess the accuracy of each gene model.

Topic

Genomics;Sequence assembly;RNA-seq;Plant biology

Detail

  • Operation: Genome annotation

  • Software interface: Command-line user interface

  • Language: Python

  • License: -

  • Cost: Free

  • Version name: 1.1.0

  • Credit: The Cooperative Research Program for Agriculture Science and Technology Development, Rural Development Administration, Republic of Korea, School of Life Sciences and Biotechnology for BK21 PLUS, Korea University.

  • Input: -

  • Output: -

  • Contact: igchoi@korea.ac.kr

  • Collection: -

  • Maturity: -

Publications

  • FunGAP: Fungal Genome Annotation Pipeline using evidence-based gene model evaluation
  • Min B, Grigoriev IV, Choi IG. FunGAP: Fungal Genome Annotation Pipeline using evidence-based gene model evaluation. Bioinformatics. 2017 Sep 15;33(18):2936-2937. doi: 10.1093/bioinformatics/btx353. PMID: 28582481.
  • https://doi.org/10.1093/bioinformatics/btx353
  • PMID: 28582481
  • PMC: -

Download and documentation

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