GMOD

Tutorials from the world of the Generic Model Organism Database (GMOD)

GMOD is a collection of open source software tools for managing, visualising, storing, and disseminating genetic and genomic data, many of which are directly interoperable.

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Material

You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides (slides) and tutorial (tutorial) buttons below.

JBrowse 1

Learn to use JBrowse v1 here.

Lesson Slides Hands-on Recordings Input dataset Workflows
Bacterial Genome Annotation
Genome annotation with Prokka
Genomic Data Visualisation with JBrowse
Identification of AMR genes in an assembled bacterial genome
Making sense of a newly assembled genome
Microbial Variant Calling
Refining Genome Annotations with Apollo (prokaryotes)
SARS-CoV-2 Viral Sample Alignment and Variant Visualization
Genome annotation with Funannotate
Genome annotation with Maker (short)
Genome annotation with Maker
Refining Genome Annotations with Apollo (eukaryotes)

MAKER

Genome Annotation with MAKER.

Lesson Slides Hands-on Recordings Input dataset Workflows
Genome annotation with Maker (short)
Genome annotation with Maker

InterMine

InterMine is a data warehouse you can query for interesting features and data.

Lesson Slides Hands-on Recordings Input dataset Workflows
InterMine integration with Galaxy

Apollo v2

Apollo is a collaborative, real time genome annotation editor.

Lesson Slides Hands-on Recordings Input dataset Workflows
Refining Genome Annotations with Apollo (prokaryotes)
Refining Genome Annotations with Apollo (eukaryotes)

Editorial Board

This material is reviewed by our Editorial Board:

orcid logoHelena Rasche avatar Helena Rascheorcid logoAnthony Bretaudeau avatar Anthony Bretaudeau

Contributors

This material was contributed to by:

Simon Bray avatar Simon Brayorcid logoErwan Corre avatar Erwan Correorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoSimon Gladman avatar Simon Gladmanorcid logoStéphanie Robin avatar Stéphanie RobinYo Yehudi avatar Yo YehudiFrederick Tan avatar Frederick TanElizabeth Humphries avatar Elizabeth HumphriesJasper Ouwerkerk avatar Jasper Ouwerkerkorcid logoPaul Zierep avatar Paul ZierepNatalie Kucher avatar Natalie Kucherorcid logoHelena Rasche avatar Helena Rascheorcid logoMateo Boudet avatar Mateo Boudetorcid logoLaura Leroi avatar Laura LeroiNathan Dunn avatar Nathan Dunnorcid logoDelphine Lariviere avatar Delphine LariviereDaniela Butano avatar Daniela ButanoRobert Meller avatar Robert Mellerorcid logoAlexandre Cormier avatar Alexandre CormierTorsten Seemann avatar Torsten Seemannorcid logoMiaomiao Zhou avatar Miaomiao Zhouorcid logoJonathan Kreplak avatar Jonathan KreplakKatherine Cox avatar Katherine Coxorcid logoAnna Syme avatar Anna Symeorcid logoBjörn Grüning avatar Björn Grüningorcid logoAnthony Bretaudeau avatar Anthony BretaudeauBazante Sanders avatar Bazante Sandersorcid logoTeresa Müller avatar Teresa MüllerAnton Nekrutenko avatar Anton Nekrutenkoorcid logoDeepti Varshney avatar Deepti Varshneyorcid logoBérénice Batut avatar Bérénice Batutorcid logoSaskia Hiltemann avatar Saskia HiltemannCandace Savonen avatar Candace SavonenAva Hoffman avatar Ava Hoffman

Funding

These individuals or organisations provided funding support for the development of this resource