sanger-pathogens / mlst_checkLinks
Multilocus sequence typing by blast using the schemes from PubMLST
☆30Updated 3 years ago
Alternatives and similar repositories for mlst_check
Users that are interested in mlst_check are comparing it to the libraries listed below
Sorting:
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Updated last year
- ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…☆31Updated 10 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆43Updated 5 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 5 years ago
- Discover and annotate the virome☆55Updated 2 months ago
- Visualize whole genome alignments as linear maps☆74Updated 4 months ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆68Updated 3 years ago
- A set of scripts for calculating pairwise SNP distance☆43Updated 2 years ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆55Updated 5 months ago
- Pangenome analysis of eukaryotes.☆20Updated 5 years ago
- Assembling the cause of phenotypes and genotypes from NGS data☆29Updated 5 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆57Updated 4 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆37Updated last year
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆40Updated last year
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- strain-level analysis tools☆39Updated last year
- Gene-flank analysis tool☆34Updated last year
- hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.☆69Updated 3 weeks ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- ☆20Updated 8 years ago
- ☆43Updated last year
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆46Updated 2 years ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆38Updated 2 years ago
- Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…☆33Updated 2 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆32Updated last year
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆61Updated last month
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆25Updated 2 years ago