EMBO Practical Course

Population Genomics: background and tools

Go to the official EMBO website

Highlights from the 2017 course here

#EMBOpopgen

Connections

WiFi and SSH instructions here

Timetable

Speakers schedule

• Andrés Aida 18-22 May
• Manica Andrea 18-26 May
• Clark Andrew 18-23 May
• Hellenthal Garrett 19-26 May
• Moltke Ida 18-24 May
• Sikora Martin 23-26 May
• Currat Mathias 18-26 May
• Delaneau Olivier 18-21 May
• Gerbault Pascale 18-24 May

All raw data and software are available on the INFN machine

Days	Lessons	Tutorials
day 1	Opening Lecture	Linux Tutorial - OnePageLinuxManual
day 2	Data QC and ExploratoryData Analysis I - Data QC and ExploratoryData Analysis II	practical I - practical II - commands list I - commands list II
day 3	Genetic Forces - Species divergence	AlleleFreqDyn - InfiniteSites - SampleData1 - SampleData2 - SampleData3 - WFsim
day 4	Natural Selection - GWAS	Natural Selection tutorial Natural Selection data - GWAS tutorial
day 5	Coalescence made fun and easy - Relatedeness Local - Relatedeness Global	Coalescence exercises - Relatedeness exercises
day 6
day 7	Clustering Lecture - F stats	Clustering Practical - F stats practical
day 8	Demography lecture - HapBased-Demography Lecture	Demography practicals - HapBased-Demography Practical
day 9

Group Projects

Project 1

Day trip to Procida

Schedule

• 09:30 Meet in the hotel courtyard
• 10:45 Boat to Procida

• 11:45 arrival at Procida and walk to Chiesa di Santa Margherita

• 12:30 lunch

• 13:30 Research Clinics

• 15:00 Free time on the Island

• 17:40 Meet at the Porto in Procida

• 17:55 Boat back to Napoli

• 18:55 Arrival at Napoli

Pompei - Ercolano

Pompei and Ercolano are two famous archaeological sites that lie in the shadow of mount Vesuvius, the active volcano that dominates the area.

They were destroyed by pyroclastic flows during the massive eruption of Vesuvius in 79 AD.

Go to the central train station at Piazza Garibaldi. You'll find the Circumvesuviana (the train system that connects the Napoli and the towns and cities in the region around Vesuvius) on the lower level of the station. Buy tickets (about 3 euro each way) and take the Circumvesuviana to Pompei Scavi. Note that other regional trains go to the modern city of Pompei but you will need to walk about 25 minutes from that station to the archaeological site while the station Pompei Scavi is just a few minutes from the entrance to the park. A single cafeteria serves the site, so you may want to bring snacks. It can be hot and there is virtually no shade, so dress accordingly. Pompei is a vast ruin, and a walk through most of it should take at least three hours.

Ercolano lies on the same train line as Pompei, but is closer to Napoli. To get there, leave the Circumvesuviana at Ercolano Scavi, and walk down the hill towards the sea for about ten minutes. Ercolano is much smaller than Pompei, but what it lacks in size it makes up in the quality of its preservation. It is possible to visit both sites in one day, but you will probably want to start early.