phac-nml / sistr_cmd
SISTR (Salmonella In Silico Typing Resource) command-line tool
☆25Updated last month
Related projects ⓘ
Alternatives and complementary repositories for sistr_cmd
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 3 years ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆39Updated 3 months ago
- A tool for removing redundant genomes from a set of assemblies☆68Updated last year
- A MinION-based pipeline for tracking species biodiversity☆12Updated 8 months ago
- Split Kmer Analysis☆63Updated 2 years ago
- whole genome MLST analysis☆38Updated 5 months ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated 6 months ago
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆42Updated 4 years ago
- CDCgov/mycosnp-nf☆36Updated last month
- Predict MLST directly from uncorrected long reads☆25Updated 2 years ago
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- tools for assessing the accuracy of genome assemblies☆34Updated 6 months ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 2 years ago
- ☆33Updated 2 years ago
- Basic workflow for nanopore sequencing data☆14Updated this week
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆52Updated last year
- SeqSero2☆33Updated 7 months ago
- ☆51Updated 3 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆50Updated 6 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆51Updated 2 months ago
- Fast genealogical relationship evaluation of bacterial isolates with WGS data.☆12Updated 2 years ago
- Gene Absence Presence Identification tool.☆26Updated last year
- IS mapping software☆51Updated 2 years ago
- Predict plasmids from uncorrected long read data☆39Updated 4 years ago
- Mobile Genetic Elements Retrieving Tool☆15Updated 2 years ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 6 years ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆40Updated last year
- Automated strain separation of low-complexity metagenomes☆50Updated 2 years ago
- ☆43Updated this week