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Jonas Fuchs

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@jonas-fuchs

Molecular virologist by training. Developing software for viral genomics.

www.uniklinik-freiburg.de/virologie-en/research/research-teams/jonas-fuchs-team.html

BAMdash. create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks

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varVAMP. Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.

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MSAexplorer. A python graphing library for plotting multiple sequence alignments. An app build on top that runs everything in your browser.

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virHEAT. Visualize microbial evolution at the SNP level!

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SARS-CoV-2-analyses. Collection of R scripts for SARS-CoV-2 (variant) analyses

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ViralPrimerSchemes. Repository for pan-spefic primers designed for tiled full genome sequencing or qPCR of viral pathogens. Pathogens include amongst others Hepatitis E virus, Hepatitis A virus, Poliovirus and SARS-COV-2. Primers were designed with varVAMP.

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distributionTester. Helper script to test how distributions fit to numerical data.

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General-NGS-visualisation-tools. R

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viral_orf_finder. Search for open reading frames in viral genomes!

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varVAMP_in_silico_analysis. analyse varVAMP primer schemes

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