Public-Health-Bioinformatics / pubmlst_clientLinks
List and download schemes from pubMLST.org and other BIGSDB servers
☆10Updated 11 months ago
Alternatives and similar repositories for pubmlst_client
Users that are interested in pubmlst_client are comparing it to the libraries listed below
Sorting:
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆62Updated 3 months ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- A tool for removing redundant genomes from a set of assemblies☆77Updated 3 weeks ago
- Archived - please see updated sccmec tool at link below☆13Updated last year
- Recombination-free trees☆60Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated last week
- Order and orientation of complete bacterial genomes☆28Updated 2 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Updated 2 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 2 months ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- mGEMS Genomic epidemiology with mixed samples☆15Updated last year
- Calculate confidence scores from Kraken2 output☆23Updated last year
- Code Safety Inspection Service☆20Updated 3 years ago
- Assembly of Nanopore Sequencing☆16Updated 3 weeks ago
- in silico typing of the H. influenzae cap locus☆12Updated last year
- Extract subsets of ONT (Nanopore) reads based on time☆22Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- Automated strain separation of low-complexity metagenomes☆50Updated 3 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆31Updated 5 months ago
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Updated 2 years ago
- Colinear block visualisation tool☆31Updated last year
- SeqSero2☆38Updated last week
- Genome size estimation from long read overlaps☆61Updated 2 weeks ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- Whole genome core alignments from multiple draft genomes☆13Updated 9 years ago