Schedule
Please find the provisional schedule below. Instructors will make their materials available here either before or after activities.
| Date | Period | Start time | End time | Type | Topic | Instructors | Slides and ressources |
|---|---|---|---|---|---|---|---|
| September 28 | morning | 9:00 AM | 10:00 AM | participant arrival | check-in morning | / | / |
| morning | 10:00 AM | 11:45 AM | participant arrival | check-in, rest and free time computer configuration verifications and installation | / | / | |
| afternoon | 1:00 PM | 4:00 PM | participant arrival | computer configuration verifications and installation / free time and beach time | / | / | |
| afternoon | 4:00 PM | 5:00 PM | diplomatic / administrative | program and general presentation / general introduction | Jordi / all | Jordi_Welcoming_introduction _program_orga | |
| afternoon | 5:00 PM | 6:00 PM | pre-course evaluation | scientific and technical evaluation | none / all | / | |
| September 29 | morning | 8:00 AM | 8:30 AM | Seminar | Jordi Salmona Introduction: Why organising a workshop in conservation genomics now in Madagascar? | / | Lecture_Introduction_Jordi |
| morning | whenever it happends | whenever it happends | diplomatic / administrative | Inauguration with Univ. and doctoral school presidents | / | / | |
| morning | 8:30 AM | 11:45 AM | plenaries and praticals | introductory talk, planning and BASH1 and maps in R | Jordi & Besoa + Tanjona update | Lecture_Bash_Tanjona Tuto_BASH_Tanjona Lecture_maps_Tanjona Tuto_maps_Tanjona |
|
| early afternoon | 1:00 PM | 2:45 PM | plenaries and praticals | BASH2, SLURM and Servers | Jordi & Besoa + Tanjona update | Lecture_SHELL_Tanjona Tuto_SHELL_Tanjona |
|
| late afternoon | 3:00 PM | 6:00 PM | projects | introduction, papers, data, choice and organisation | JS | / | |
| September 30 | morning | 8:00 AM | 8:30 AM | Seminar | Jordi Salmona: Mouse lemur taxonomy | / | Jordi_Mouse_lemur_taxonomy_NEE_talk |
| morning | 8:30 AM | 11:45 AM | plenaries and praticals | reproducible analyses Rmardown or Quarto | George + Tanjona ? | / | |
| early afternoon | 1:00 PM | 2:45 PM | plenaries and praticals | Spatial data processing and building maps in R | Tanjona + Besoa | / | |
| late afternoon | 3:00 PM | 6:00 PM | projects | / | / | / | |
| October 1 | morning | 8:00 AM | 8:30 AM | Seminar | Maeva | / | Maeva Gabrielli_Seminar_Genetic Load |
| morning | 8:30 AM | 11:45 AM | plenaries and practicals | Conservation genomics introduction / different data types/sequencing data and quality control | Jordi + TP (Besoa) | tuto_day03 | |
| early afternoon | 1:00 PM | 2:45 PM | plenaries and praticals | sequence mapping and variant calling / snp vs GL | Jordi + TP (Besoa) | / | |
| late afternoon | 3:00 PM | 6:00 PM | projects | / | / | / | |
| October 2 | morning | 8:00 AM | 8:30 AM | Seminar | Helena | / | Seminar_Puffins_Helena_Teixeira |
| morning | 8:30 AM | 11:45 AM | plenaries and praticals | main principles of popgen + / measuring genetic diversity | Hanta - George, TP (Besoa + George) | tuto_diversity | |
| early afternoon | 1:00 PM | 2:45 PM | plenaries and praticals | infering population structure 1 - clustering fst and PCA | Rindra (Course) + Besoa + Helena (TP) | Lecture_Rindra_Rakotoarivony_Population_Structure Giraffe_genomics_paper_Bertola_2024 ScriptR_Helena_Teixeira_PCA |
|
| late afternoon | 3:00 PM | 6:00 PM | projects | / | / | / | |
| October 3 | morning | 8:00 AM | 8:30 AM | Seminar | Rindra | / | / |
| morning | 8:00 AM | 11:45 AM | plenaries and praticals | infering population structure 2 - IBD | Jordi - Besoa + Helena (Course) | / | |
| early afternoon | 1:00 PM | 3:30 PM | projects | projects | projects | / | |
| late afternoon | 3:30 PM | 6:45 PM | Break | Well deserved break | Praia - Plage - Beach | / | |
| October 4 | morning | 8:00 AM | 8:30 AM | Seminar | Jordi monk seals | / | / |
| morning | 8:00 AM | 11:45 AM | plenaries and praticals | measuring genetic diversity - ROH | Maeva, Jordi + TP (besoa) | / | |
| early afternoon | 1:00 PM | 2:45 PM | plenaries and praticals | measuring genetic load 1 | Maeva, Jordi + TP (besoa) | Maeva_ROH | |
| late afternoon | 3:00 PM | 6:00 PM | projects | / | / | Maeva SnpEff | |
| October 5 | morning | 8:00 AM | 8:30 AM | Seminar | Helena | / | / |
| morning | 8:30 AM | 11:45 AM | plenaries and praticals | Landscape genetics 1 | Jordi & Besoa | Landscape genetics practicals | |
| early afternoon | 1:00 PM | 2:45 PM | plenaries and praticals | Landscape genetics 2 / measuring drift debt | Jordi & Besoa | / | |
| late afternoon | 3:00 PM | 6:00 PM | projects | / | / | / | |
| October 6 | morning | 8:00 AM | 8:30 AM | Seminar | Maeva | / | / |
| morning | 8:30 AM | 11:45 AM | plenaries and praticals | demographic history assuming panmixia (helena) | George (coalescent) Helena (demo course) & practicals (Helena) | Coalescent lecture | |
| early afternoon | 1:00 PM | 2:45 PM | plenaries and praticals | demographic history with structured models | George + Helena | Helena_Teixeira_Tuto_Stairway.sh Helena_Teixeira_Tuto_Stairway_folder practical with fsc |
|
| late afternoon | 3:00 PM | 6:00 PM | projects | / | / | / | |
| October 7 | morning | 8:00 AM | 8:30 AM | Seminar | Jordi | / | / |
| morning | 8:00 AM | 11:45 AM | plenaries and praticals | presentations / 10’ per group +10 discussion | / | / | |
| whole afternoon | 1:00 PM | 2:45 PM | presentations | unformal discussion / round table | / | / | |
| evening | 3:00 PM | 6:00 PM | farewell diner and party | farewell diner and party | / | / | |
| October 8 | morning | 10:00 AM | 11:00 AM | pre-course evaluation | scientific and technical evaluation | / | / |
| morning | 11:00 AM | 12:00 PM | students feedback | unformal discussion / round table | / | / | |
| afternoon | 1:00 PM | 9:00 PM | participant departure | check-out | / | / |