CSBL::Computational & Synthetic Biology Laboratory at KU symbol

Research Topics Publications Members Softwares

Genome analysis begins with annotation.

FunGap (Fungal Genome Annotation Pipeline)

  • GitHub Download
  • FunGAP performs gene prediction on given genome assembly and RNA-seq reads. At the moment, RNA-seq data is mandatory for gene prediction.
  • Citation: “FunGAP: Fungal Genome Annotation Pipeline using evidence-based gene model evaluation”. In: BIOINFORMATICS (OXFORD, ENGLAND) 33.18 (2017), pp. 2936-2937. DOI: 10.1093/bioinformatics/btx353. PMID: 28582481

p-CAPS (prokaryotic-Contig Annotation Pipeline Server)

  • GitHub Download
  • p-CAPS is a portable web server that can annotate any chunk of DNA assembly from contigs to scaffolds to genome.
  • Citation: “Prokaryotic Contig Annotation Pipeline Server: Web Application for a Prokaryotic Genome Annotation Pipeline Based on the Shiny App Package”. In: JOURNAL OF COMPUTATIONAL BIOLOGY : A JOURNAL OF COMPUTATIONAL MOLECULAR CELL BIOLOGY 24.9 (2017), pp. 917-922. DOI: 10.1089/cmb.2017.0066. PMID: 28632399

SMAP (Shortgun Metagenome Annotation Pipeline)

  • To be public soon…