Topic outline

  • General

    Long reads applied to plant genome assembling

    Lausanne, 20-21 June 2018

    University of Lausanne, Genopode building, room 2020

    This page is addressed to registered participants. To access event description, exact location and application form, please click here.

    For any assistance, please contact training@sib.swiss.


    • Schedule

      1st day: assembly of long reads

      08.30 - 08.45 Welcoming

      08.45 - 09.15 Philippe Reymond: Assembly of the Oak genome and assessment of somatic mutations

      09.15 - 09.45 Emanuel Schmid: overview on single molecule sequencing and assembly of long reads

      09.45 - 10.00 Coffee break

      10.00 - 10.30 Sergey Koren: presentation of the assembler Canu and latest developments

      10.30 - 11.30 demo of Sergey Koren, assembly of E. coli

      11.30 - 12.30 lunch break

      12.30 - 15.00 hands-on: assembling in small groups a plant contig

      15.00 - 15.15 coffee break

      15.15 - 17.00 hands-on: continuing genome assembly

      2nd day: evaluation of genome assemblies

      08.30 - 08.45 Welcoming

      08.45 - 09.15 Robert Waterhouse: BUSCO- assessing genome assembly and annotation completeness

      09.15 - 09.45 Damien Liebherr: SwissProt and the curation of (plant) proteins

      09.45 - 010.00 Coffee break

      10.00 - 10.30 Emanuel Schmid: comparison and evaluation of genome assemblies

      10.30 - 12.00 hands-on: comparison of assembled genomes (& to reference)

      12.00 - 13.00 lunch break

      13.00 - 15.00 hands-on: comparison of assembled genomes

      15.00 - 15.15 coffee break

      15.15 - 17.00 hands-on: gene prediction


      • Course material

        More soon...