Supervisor: Bérénice Batut, Wolfgang Maier
For degree: Master
Status: In progress
Keywords: SARS-CoV-2, Galaxy, metatranscriptomics,
Global Biological/Research context
Nearly two years after the first report of SARS-CoV-2 in Wuhan, China, the COVID-19 pandemic has affected more than 485 million people. Wastewater surveillance has attracted extensive public attention during the SARS-CoV-2 pandemic, as a passive monitoring system to complement clinical and genomic surveillance activities. Several methods and protocols are already in place that effectively facilitate the detection and quantification of viral RNA in wastewater samples, and concentrations in wastewater have been shown to correlate with trends in reported cases.
Project context
The Galaxy community has put a lot of efforts for continuous analysis of intra-host variation in SARS-CoV-2 (https://galaxyproject.org/projects/covid19/), including development of workflows, on samples of individuals.
The aim of this project would be expand the efforts to support analysis of data from wastewater by e
Objectives of the project
Evaluation of existing workflows for wastewater data analaysis
Expansion and adaptation of existing Galaxy workflows
Extensive tests of workflows on mock and real data
Supervisor: Bérénice Batut, Wolfgang Maier For degree: Master Status: In progress Keywords: SARS-CoV-2, Galaxy, metatranscriptomics,
Global Biological/Research context
Nearly two years after the first report of SARS-CoV-2 in Wuhan, China, the COVID-19 pandemic has affected more than 485 million people. Wastewater surveillance has attracted extensive public attention during the SARS-CoV-2 pandemic, as a passive monitoring system to complement clinical and genomic surveillance activities. Several methods and protocols are already in place that effectively facilitate the detection and quantification of viral RNA in wastewater samples, and concentrations in wastewater have been shown to correlate with trends in reported cases.
Project context
The Galaxy community has put a lot of efforts for continuous analysis of intra-host variation in SARS-CoV-2 (https://galaxyproject.org/projects/covid19/), including development of workflows, on samples of individuals.
The aim of this project would be expand the efforts to support analysis of data from wastewater by e
Objectives of the project