Viruses
EBOV
(Ebola virus)
A collection of resources for whole genome sequencing and analysis of Ebola virus (EBOV)
MeV
(Measles virus)
A collection of resources for whole genome sequencing and analysis of Measles virus (MeV)
MPXV
(mpox virus)
A collection of resources and documents for the genome sequencing of Mpox virus (MPXV)
SARS-CoV-2
(COVID-19)
A collection of resources for whole genome sequencing and analysis of SARS-CoV-2
Protocols
Tiled amplicon sequencing
Resources and protocols for tiled amplicon sequencing
Metagenomic sequencing
Resources and protocols for metagenomic sequencing
Analysis Pipelines
amplicon-nf
A nextflow pipeline for viral amplicon sequencing data
Software
Fieldbioinformatics
A pipeline for working with viral nanopore sequencing data, generated from tiling amplicon schemes
PrimalScheme
Software to generate primer schemes for tiled amplicon sequencing from a virus Multiple Sequence Alignment.
RAMPART
Read Assignment, Mapping, and Phylogenetic Analysis in Real Time.
Squirrel
Some QUIck Reconstruction to Resolve Evolutionary Links