BSR-Based Allele Calling Algorithm

Pipeline to process metagenomic samples

NCBI Prokaryotic Genome Annotation Pipeline

The ARTIC field bioinformatics pipeline

Repo for PrimerSchemes

Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads

Read-based phasing of genomic variants, also called haplotype assembly

De novo assembler for single molecule sequencing reads using repeat graphs

Quality control for MinION sequencing data

Scheme for norovirus-gii

For the Generation of N masked genomes from clustered sequences

Toolkit for manipulating FASTA and SAM files

Tools (written in C using htslib) for manipulating next-generation sequencing data

Iterative Refinement Meta-Assembler

Read Assignment, Mapping, and Phylogenetic Analysis in Real Time

Small collection of tools for performing quality control on coronavirus sequencing data and genomes

ARTIC nanopore protocol for nCoV2019 novel coronavirus

SARs-CoV-2 Primer schemes

Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction

Spikey SARS-CoV-2 sequence based lineage set assignment

Consensus sequences for each Pango lineage

Automatically exported from code.google.com/p/cdhit

Stitch together Nanopore tiled amplicon data without polishing a reference

Primer schemes for real-time genome epidemiology

Inferring spatiotemporal dynamics of H5N1 influenza from sequence data

For all your cluster needs