artic-network / fieldbioinformaticsLinks
The ARTIC fieldbioinformatics pipeline
☆128Updated last month
Alternatives and similar repositories for fieldbioinformatics
Users that are interested in fieldbioinformatics are comparing it to the libraries listed below
Sorting:
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Updated 2 years ago
- snipit: summarise snps relative to your reference sequence☆166Updated 3 weeks ago
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆133Updated 2 weeks ago
- "Reads to report" for public health and clinical microbiology☆143Updated 2 months ago
- DDBJ Fast Annotation and Submission Tool☆84Updated last week
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆146Updated last month
- MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumin…☆47Updated 5 months ago
- Foreign Contamination Screening caller scripts and documentation☆157Updated 10 months ago
- Long-read mock community experiments☆104Updated 4 years ago
- A fast whole-genome aligner based on de Bruijn graphs☆158Updated 7 months ago
- ONT assembly and Illumina polishing pipeline☆87Updated 5 years ago
- SKESA assembler☆124Updated last year
- Metagenomic classification of long-read sequencing data☆100Updated 2 weeks ago
- ☆81Updated 5 years ago
- Benchmarking of long-read assembly tools for bacterial whole genomes☆170Updated 4 years ago
- OPERA-MS - Hybrid Metagenomic Assembler☆99Updated last year
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆149Updated 4 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆120Updated last year
- Pairwise SNP distance matrix from a FASTA sequence alignment☆151Updated last month
- Ultra-fast preprocessing and quality control for long-read sequencing data☆218Updated 5 months ago
- BSR-Based Allele Calling Algorithm☆148Updated last week
- A tool for generating consensus long-read assemblies for bacterial genomes☆211Updated last week
- Processing pipeline for pan-genome visulization and exploration☆143Updated 2 years ago
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆146Updated last month
- List of genome assembly tools☆93Updated last week
- MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.☆193Updated last week
- a tool for designing primer panels for multiplex PCR.☆106Updated 2 years ago
- NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads☆114Updated 2 years ago
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆104Updated 2 months ago
- Development version of Easyfig☆104Updated 2 years ago