Repo for PrimerSchemes

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-CO…

Quasitools is a collection of tools for analysing viral quasispecies data.

geNomad: Identification of mobile genetic elements

WtP: Phage identification via nextflow and docker or singularity

Foreign Contamination Screening caller scripts and documentation

Fast and Accurate Variant Identification Tool for Sequencing-Based Studies

Tool for plotting sequencing data along genomic coordinates.

A simple script to calculate the coverage of a genome assembly

Precise host read removal

Benchmark Dataset Evaluation & COmparison of Nifty, Versatile, Objective Lineage-Unscrambling-Tool Execution

iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.

SARS-CoV-2 (Va)riant (Qu)antification in s(E)wage, designed for (Ro)bustness

An overview of all nanopack tools

A tool for generating consensus long-read assemblies for bacterial genomes

quality filtering tool for long reads

KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files

Minimal but speedy quality control for nanopore reads in Rust 🐻

A mathematically characterized hypothesis test for organism presence/absence in a metagenome

Nextstrain build for avian influenza viruses

pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies basecaller (Albacore/Guppy)

User editable database for TV channels.

Collection of publicly available IPTV channels from all over the world

Sorts amplicons from Nanopore sequencing data based on similarity

NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads

Combine your ONT fastq files with a simple command!