2019 Wuhan Coronavirus data (COVID-19 / 2019-nCoV)
Unpivoted and cleaned data sets on the COVID-19 pandemic
Infectious Disease Sequencing Platform
The Blue Brain BioExplorer (BBBE) is a tool for data visualization experts and scientists to extract and analyze scientific data from visualization and interactive exploration
VAPiD: Viral Annotation and Identification Pipeline
Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.
Reconstruction and analysis of viral and host genomes at multi-organ level
Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical biologists and wet-lab personnel to do metagenomics/viromics analyses themselves, without bioinformatics expertise.
A software to detect virome-wide integrations
Code and data used in Mollentze et al. (2021) "Identifying and prioritizing potential human-infecting viruses from their genome sequences".
genetic distance plotting for recombination events analysis
Detect iSNV and construct whole viral genomes from metagenomic samples
SARS2seq is a pipeline designed to process raw FastQ data from targeted SARS-CoV-2 sequencing and generate biologically correct consensus sequences of the SARS-CoV-2 genome.
The art of decorating a phage genome by gluing feature cutouts into it.
ViroConstrictor is a pipeline designed to process raw FastQ data from viral amplicon-based sequencing and generate biologically correct consensus sequences of the given viral genome
TrueConsense is a consensus caller for viral-targets that create biologically correct consensus sequences. TrueConsense keeps track of open reading frames, compensates for common sequencing or alignment artefacts, and is able to generate consensus sequences on multiple coverage-thresholds at the same time
NGS data analysis scripts for HBV elimination research group
Analysis of insertions in the genomes and proteins of coronaviruses. Illustration: AvH. (2020). Covid-19 cracked <http://doi.org/10.5281/zenodo.3734643>
Circular particle counter for electron microscope images
FluMut is a command-line tool to find markers of interest in H5N1 avian influenza viruses.
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