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2021_Flash talks
KamilSJaron edited this page Jan 10, 2023
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1 revision
All talks are recorded here.
- Gaurav Agavekar - Genomic correlates of convergent evolution of a biomechanical innovation
- Surabhi Ranavat - New insights into the genetic basis of flexistyly in the ginger genus Alpinia
- Gustavo Ramos - The Andira clade: case studies in the evolution of the legume flower and taxonomy of Amazon trees
- Marilou Boddé - Mosquitoes with complex identities - exploring population structure in the Anopheles genus
- Laura Marian Valencia Pesqueira - Evolution of anoxia tolerance in crucian carp and goldfish
- Rowan Schley - Do taboo trysts between tropical trees drive diversification?
- Sabhrina Gita Aninta - Can we figure out inbreeding level of endemic ungulates with the help of their livestock relatives?
- Laura Villegas - Comparing the genomes of hybrid triploid parthenogens with those of their sexual diploid sister species
- Ronald Nieuwenhuis - Leek genomics: resolving another giant genome
- Pauline Raimondeau - The Phylogenomics of Oleaceae
Introduction
k-mer spectra analysis
- 📖 Introduction to K-mer spectra analysis
- 📖 Basics of genome modeling
- ⚒ manual model fitting (for better understanding of the underlying model)
- ⚒ simple diploid
- ⚒ demonstrating the effect of sequencing error rate on k-mer coverage
- 📖 Common difficulties in characterisation of diploid genomes using k mer spectra analysis
- ⚒ low coverage (pitfall) - to be merged
- ⚒ very homozygous diploid
- ⚒ highly heterozygous diploid
- ⚒ Genome size of a repetitive genome (pitfall)
- ⚒ Wrong ploidy (pitfall)
- 📖 Characterization of polyploid genomes using k mer spectra analysis
- ⚒ Autotetraploid
- ⚒ Allotetraploid
- ⚒ Estimating ploidy (smudgeplot)
- 📖 Genome modeling as a quality control
- ⚒ Contamination (pitfall)
- ⚒ k-mers in an assembly (Mercury/KAT)
- 📖 Analysing genome skimming data
Separation of chromosomes
- 📖Separate sub-genomes of an allopolyploid
- 📖Separating chromosomes by comparison of sequencing libraries
Species assignment using short k-mers
Others