phac-nml / sistr_cmd
SISTR (Salmonella In Silico Typing Resource) command-line tool
☆26Updated last month
Alternatives and similar repositories for sistr_cmd:
Users that are interested in sistr_cmd are comparing it to the libraries listed below
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 3 years ago
- whole genome MLST analysis☆40Updated 8 months ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated 9 months ago
- tools for assessing the accuracy of genome assemblies☆34Updated 9 months ago
- A tool for removing redundant genomes from a set of assemblies☆70Updated last year
- ☆36Updated 2 years ago
- SeqSero2☆33Updated 9 months ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆44Updated last month
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆42Updated last year
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆56Updated this week
- Split Kmer Analysis☆63Updated 2 years ago
- Predict MLST directly from uncorrected long reads☆26Updated 2 years ago
- A MinION-based pipeline for tracking species biodiversity☆13Updated 11 months ago
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- ☆52Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆43Updated 4 years ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 6 years ago
- Mobile Genetic Elements Retrieving Tool☆15Updated 3 years ago
- Fast genealogical relationship evaluation of bacterial isolates with WGS data.☆12Updated 3 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆54Updated 4 months ago
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆38Updated last month
- EzAAI - High Throughput Prokaryotic AAI Calculator☆37Updated 3 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Identify phage regions in bacterial genomes for masking purposes☆30Updated 5 years ago
- A toolkit for prokaryotic comparative genomics☆38Updated 2 months ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 2 years ago
- Basic workflow for nanopore sequencing data☆15Updated this week
- Snakemake workflow for bacterial genome assembly + polishing for Oxford Nanopore (ONT) sequencing using multiple tools.☆19Updated 8 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago