Variant Analysis

Welcome to the Variant Analysis track. Here you can learn about Variant Analysis. If you need support contact us via the Slack Channel gta_variant_analysis.

Organiser(s) orcid logoKrzysztof Poterlowicz avatar Krzysztof Poterlowiczorcid logoKhaled Jum'ah avatar Khaled Jum'ah
Instructor(s) orcid logoAnna Syme avatar Anna SymeAnton Nekrutenko avatar Anton Nekrutenkoorcid logoDelphine Lariviere avatar Delphine LariviereIgor Makunin avatar Igor Makuninorcid logoJennifer Hillman-Jackson avatar Jennifer Hillman-Jacksonorcid logoKhaled Jum'ah avatar Khaled Jum'ahScott Cain avatar Scott Cainorcid logoWolfgang Maier avatar Wolfgang Maierorcid logoKatarzyna Kamieniecka avatar Katarzyna KamienieckaMingkai Wang avatar Mingkai Wang

Need help with these tutorials?

Open Slack support channel for this track:   #gta_variant_analysis

Variant Analysis introduction

If you are new to Variant Analysis, please start with the following tutorials. They cover the essential knowledge about Variant Calling in different diploid systems and organisms. If you encounter any issues, please ask us on Slack.

Lesson Slides Hands-on Recordings
Calling variants in diploid systems
Calling variants in non-diploid systems
prokaryote microgalaxy
Exome sequencing data analysis for diagnosing a genetic disease
Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
covid19 virology one-health

Advanced analysis

Here are some more advanced tutorials you can follow if you like. They apply the previous knowledge to selected use cases and introduce Beacon for data sharing and queries. If you encounter any issues, please ask us on Slack.

Lesson Slides Hands-on Recordings
Identification of somatic and germline variants from tumor and normal sample pairs
Somatic Variant Discovery from WES Data Using Control-FREEC
M. tuberculosis Variant Analysis
prokaryote one-health microgalaxy tuberculosis