[ Ссылка ]

Genome profiling using GenomeScope
This session is part of Biodiversity Genomics Academy 2023

Session Leader(s)
Lucía Campos-Domínguez
Kamil Jaron

Programme
Introduction to k-mer spectra, their interpretation and running GenomeScope (lecture by Lucía, ~30')
Ex. 1: Running and understanding genome models (~30')
Looking under the hood of the GenomeScope model (lecture by Kamil, ~20')
Ex. 2: Running GenomeScope-like model yourself in R; Using GenomeTelescope package (~20')
Discussion/Interpretation of wild k-mer spectra (~20')
We will bring a bunch of examples; but feel free to bring your own wild k-mer spoectrum to share with others!

Description
By the end of this session you will be able to:

Appreciate the art of the k-mer spectra gazing
Understand the idea behind genomescope model and its assumptions
Generate k-mer spectrum from a read set
Run GenomeScope in command-line and web-server
(if everything goes well) Create your own GenomeScope-like extended versions;

Prerequisites
Basics knowledge of genomics
Be ready for some non-linear regression
(optional) familiarity with k-mers (Some materials developed by ourselves: [ Ссылка ])
(optional) Read relevant sections of [ Ссылка ]

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