Recent Group News

  • Our paper on the compaction of a de Bruijn graph built from reads has been published in ISMB 2016. Read more here.

  • Our TwoPaCo algorithm for building the compacted de Bruijn graph from complete genomes won the best poster award at RECOMB 2016!

  • Our paper on the sequencing and assembly of the Gorilla Y Chromosome has been published at Genome Research. You can read more about it in the news.

  • Our paper on safe and complete contig assembly via omnitigs was accepted for publication at RECOMB 2016. Read more here.

  • Our paper on the readability of overlap digraphs was accepted for publication at CPM 2015. Read more here.

  • KmerGenie wins Best Paper award at HiTSeq! Read more about KmerGenie here.

Current / Upcoming Courses

  • Algorithms and Data Structures in Bioinformatics, CSE / BMMB 566, Spring 2016.

Recent Software

  • VarMatch: matching variants in VCF files.
  • BCALM 2 : de Bruijn graph compacation from reads.
  • TwoPaCo : de Bruijn graph construction from complete genomes.
  • FlowgramFixer : base-caller for IonTorrent sequencing data
  • KmerGenie : k-mer size selection for genome assembly

Funding