Contributions

The following list includes only slides and tutorials where the individual has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.

GitHub Activity

Tutorials

Variant Analysis / Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
Variant Analysis / Trio Analysis using Synthetic Datasets from RD-Connect GPAP
Variant Analysis / Exome sequencing data analysis for diagnosing a genetic disease
Variant Analysis / Identification of somatic and germline variants from tumor and normal sample pairs
Variant Analysis / Somatic Variant Discovery from WES Data Using Control-FREEC
Variant Analysis / Mapping and molecular identification of phenotype-causing mutations
Transcriptomics / Pre-processing of Single-Cell RNA Data
Assembly / Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
Sequence analysis / Removal of human reads from SARS-CoV-2 sequencing data
Using Galaxy and Managing your Data / Automating Galaxy workflows using the command line

News

New Tutorial: Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data

Analysis flow in the 'Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data' tutorial. It teaches how to obtain, run and combine workflows appropriately for 4 different types of input data. Image adapted from covid19.galaxyproject.org

30 June 2021

Authors:

Bérénice Batut

Wolfgang Maier

Effectively monitoring global infectious disease crises, such as the COVID-19 pandemic, requires capacity to generate and analyze large volumes of sequencing data in near real time. These data have proven essential for monitoring the emergence and spread of new variants, and for understanding the evolutionary dynamics of the virus.

Full Story