Topic outline

  • General

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    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