暂无描述

Software package for assigning SARS-CoV-2 genome sequences to global lineages

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

Variant calling & manipulating files in the Variant Call Format (VCF) and its binary counterpart BCF

Computational package that contains functions broadly useful for viral amplicon-based sequencing

Viral Annotation DefineR: classification and annotation of viral sequences

FastQC: A quality control analysis tool for high throughput sequencing data

Kraken2: Taxonomic sequence classifier. Some images with a kraken2 db and some w/out

BBTools suite of tools from Joint Genome Institute

Pre-process NGS data to prepare for downstream analysis

Trimmomatic: A flexible read trimming tool for Illumina NGS data

暂无描述

Freyja: recover relative lineage abundances from mixed SARS-CoV-2 samples from a sequencing dataset

Software to load/search/serve summary statistics data

Scan contig files against traditional PubMLST typing schemes (tool from T. Seemann)

Automated prokaryotic genome annotation tool

SPAdes - de novo DBG genome assembler

GWAS Public Facing Rest API. Exposes endpoints for accessing the GWAS databases programatically

GWAS Deposition App backend service

暂无描述

暂无描述

Find acquired AMR genes and some point mutations in protein or assembled nucleotide sequences

Faster SPAdes (or SKESA or Velvet) assembly of Illumina reads

SKA: Split Kmer Analysis

nf_coverage_demo automated build

ANNOVAR

Assembly Pipeline for GHRU