Plants

Set of tutorials from various topics that use plant datasets for analysis

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Material

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

Assembly

Lesson Slides Hands-on Recordings Input dataset Workflows
Chloroplast genome assembly
plants nanopore jbrowse1 biodiversity
ERGA post-assembly QC
plants animals genome assembly QC biodiversity
Large genome assembly and polishing
assembly polishing nanopore plants biodiversity

FAIR Data, Workflows, and Research

Lesson Slides Hands-on Recordings Input dataset Workflows
DataPLANT ARCs
plants fair data stewardship

Genome Annotation

Lesson Slides Hands-on Recordings Input dataset Workflows
From small to large-scale genome comparison
plants prokaryote

Microbiome

Lesson Slides Hands-on Recordings Input dataset Workflows
16S Microbial analysis with Nanopore data
metabarcoding 16S nanopore microgalaxy plants

Sequence analysis

Lesson Slides Hands-on Recordings Input dataset Workflows
Identification and Evolutionary Analysis of Transcription-Associated Proteins in Streptophyte algae and Land plants
plants
NCBI BLAST+ against the MAdLand
plants

Single Cell

Lesson Slides Hands-on Recordings Input dataset Workflows
Analysis of plant scRNA-Seq Data with Scanpy
plants paper-replication 10x

Transcriptomics

Lesson Slides Hands-on Recordings Input dataset Workflows
Whole transcriptome analysis of Arabidopsis thaliana
miRNA plants stress tolerance

Editorial Board

This material is reviewed by our Editorial Board:

orcid logoDeepti Varshney avatar Deepti Varshneyorcid logoSaskia Hiltemann avatar Saskia Hiltemann

Contributors

This material was contributed to by:

orcid logoTom Brown avatar Tom Brownorcid logoTeresa Müller avatar Teresa Müllerorcid logoPavankumar Videm avatar Pavankumar Videmorcid logoBérénice Batut avatar Bérénice Batutorcid logoWendi Bacon avatar Wendi Baconorcid logoCristina Martins Rodrigues avatar Cristina Martins Rodriguesorcid logoDeepti Varshney avatar Deepti Varshneyorcid logoDelphine Lariviere avatar Delphine LariviereFabian Recktenwald avatar Fabian Recktenwaldorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoSabrina Zander avatar Sabrina Zanderorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solanoorcid logoHelena Rasche avatar Helena Rascheorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoDominik Brilhaus avatar Dominik Brilhausorcid logoMartin Kuhl avatar Martin KuhlStella Eggels avatar Stella EggelsEsteban Perez-Wohlfeil avatar Esteban Perez-WohlfeilMehmet Tekman avatar Mehmet Tekmanorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoAnna Syme avatar Anna Symeorcid logoKevin Frey avatar Kevin Freyorcid logoBjörn Grüning avatar Björn Grüning

Funding

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

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Melbourne Bioinformatics
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MAdLand
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DFG
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The University of Melbourne
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DataPLANT
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Australian BioCommons