• Advanced Courses in Life Sciences

    Header of Genetics and Genomics at Transmitting Science

Course – 2nd Edition

Manipulation of NGS Data for Genomic and Population Genetics Analyses

February 4th-7th, 2020, Barcelona (Spain)

Genetics and Genomics

Genetics and Genomics

Manipulation of NGS Data for Genomic and Population Genetics Analyses

REQUIREMENTS

Graduate or postgraduate degree in Biomedical or Life Sciences. All participants must bring their own personal laptop with the following software installed: Putty (Windows only), Filezilla and Komodo Edit.

Contact

courses@transmittingscience.com

REGISTRATION IS CLOSED

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LOCATION

Can Carol

C/ Font de la Reina, 5
08786 Capellades, Barcelona (Spain)

How to get there

DATE

February 4th-7th, 2020

LANGUAGE

English

COURSE LENGTH & ECTS

26 hours on-site.

This course is equivalent to 1 ECTS (European Credit Transfer System) at the Life Science Zurich Graduate School.

The recognition of ECTS by other institutions depends on each university or school.

PLACES

Places are limited to 15 participants and will be occupied by strict registration order.

Participants who have completed the course will receive a certificate at the end of it.

Francois Sabot instructor for Transmitting Science

Dr. François Sabot
Institute of Research for Development
France

Cecile Monat instructor for Transmitting Science

Dr. Cécile Monat
Institut National de la Recherche Agronomique
France

Program

Tuesday

  • Introduction to NGS sequencing platforms.
  • Introduction to basic command lines.
  • Basic raw data manipulations (counting sequences, listing files).

Wednesday

  • Raw data QC & Cleaning.
  • Introduction to TOGGLe, a NGS pipeline framework.
  • Mapping: principle, tools, execution.
  • Mapping: cleaning, data control, realigning, duplicates marking.

Thursday

  • SNP calling: raw calling, cleaning calling, filtering.
  • VCF manipulations: filtering on MAF, heterozygosity…
  • Impact of SNPs on genes.
  • Population genomics using sNMF.

Friday

  • Context-based analyses.
  • Piping large scale analyses for multiple samples using TOGGLe.
  • Testing new tools and different conditions to answer different biological questions.
  • Questions.

Fees

  • Course Fee
  • Early bird (until November 30th, 2019):
  • 534 € *

    (427.20 € for Ambassador Institutions)

  • Regular (after November 30th, 2019):
  • 667 € *

    (533.60 € for Ambassador Institutions)

  • This includes course material, coffee breaks and lunches (VAT included).
    * Participants from companies/industry will have an extra charge of 100 €.
  • Course Fee + Accommodation Package
  • Early bird (until November 30th, 2019):
  • 804 € *

    (697.20 € for Ambassador Institutions)

  • Regular (after November 30th, 2019):
  • 937 € *

    (803.60 € for Ambassador Institutions)

  • This includes course material, coffee breaks, transportation from and to Barcelona city, accommodation from Sunday to Friday, breakfasts, lunches and dinners (VAT included).
    * Participants from companies/industry will have an extra charge of 100 €.

You can check the list of Ambassador Institutions. If you want your institution to become a Transmitting Science Ambassador please contact us at communication@transmittingscience.com

Schedule

Course Schedule

Participants will make their own way

  • Monday to Friday:
    • 9:30 to 13:30 Lessons.
    • 13:30 to 14:30 Lunch (included).
    • 14:30 to 17:00 Lessons.

The class schedule is approximate; it is possible that the content of one day may run into the next and a working day may be longer than advertised.

Course + Accommodation Package Schedule
  • Monday:
    • 19:00 Meeting point in Plaza Catalunya (Barcelona) to take the bus to Els Hostalets de Pierola. If you are planning to arrive later, you can find more information on how to get there.
    • 20:00 Registration in the Hostel.
    • 20:30 Dinner.
  • Tuesday to Thursday:
    • 08:00 to 09:00 Breakfast
    • 9:30 to 13:30 Lessons
    • 13:30 to 14:30 Lunch (included)
    • 14:30 to 17:00 Lessons
    • 20:30 Dinner
  • Friday:
    • 8:00 to 9:00 Breakfast.
    • 9:30 to 13:30 Lessons
    • 13:30 to 14:30 Lunch (included)
    • 14:00 to 16:30 Lessons
    • 17:00 Meeting point in the Hostel to take the bus to Barcelona city.
    • 18:30 Arrival at Plaza Catalunya (Barcelona).

The class schedule is approximate; it is possible that the content of one day may run into the next and a working day may be longer than advertised.

Accommodation

If you choose the Accommodation Package you will be hosted at Rural House Can Carol, in shared en-suite rooms, although you will only share rooms with other course participants (male or female only).

If you prefer to stay in a single en-suite room, you can do so with a supplementary charge.

The Accommodation Package includes transportation from the centre of Barcelona city to the venue and back, at the start and end of the course, respectively. The trip takes around 1 hour each way. 

If the number of participants exceeds the available rooms at Can Carol, some of them could be accommodated in the Hotel Tall del Conill, by registration order. The hotel is at 10 minutes walking, although transport will be provided in the morning and after dinner. Lunches and dinners will be with the whole group.

Accommodation is included from Sunday (check-in) to Friday (check-out). Breakfast, lunch and dinner are also provided during the week, starting from the dinner of Sunday to lunch of Friday (included).

Other accommodation options

If you do not want the Accommodation Package, accommodation is available in places other than Can Carol: Where to stay near the Venue.

Funding

Discounts are not cumulative and apply only on the Course Fee. We offer the possibility of paying in two instalments (contact courses@transmittingscience.com).

Former participants will have a 5 % discount on the Course Fee.

20 % discount on the Course Fee is offered for members of some organizations (Ambassador Institutions). If you want to apply to this discount please indicate it in the Registration form (proof will be asked later).

Unemployed scientists living in the country were the course will be held, as well as PhD students based in that country without any grant or scholarship to develop their PhD, could benefit from a 40 % discount on the Course Fee. If you want to ask for this discount, please contact the course coordinator. That would apply for a maximum of 2 places and they will be covered by strict inscription order.

Related Courses

Funding

Discounts are not cumulative and apply only on the Course Fee. We offer the possibility of paying in two instalments (contact courses@transmittingscience.com).

Former participants will have a 5 % discount on the Course Fee.

20 % discount on the Course Fee is offered for members of some organizations (Ambassador Institutions). If you want to apply to this discount please indicate it in the Registration form (proof will be asked later).

Unemployed scientists living in the country were the course will be held, as well as PhD students based in that country without any grant or scholarship to develop their PhD, could benefit from a 40 % discount on the Course Fee. If you want to ask for this discount, please contact the course coordinator. That would apply for a maximum of 2 places and they will be covered by strict inscription order.