phac-nml / sistr_cmd
SISTR (Salmonella In Silico Typing Resource) command-line tool
☆27Updated 3 months ago
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 4 years ago
- A MinION-based pipeline for tracking species biodiversity☆13Updated last year
- SeqSero2☆34Updated 11 months ago
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- ☆36Updated 2 years ago
- tools for assessing the accuracy of genome assemblies☆34Updated 11 months ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated 11 months ago
- whole genome MLST analysis☆41Updated last week
- Fast k-mer based tool for multi locus sequence typing (MLST)☆43Updated 4 years ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- Predict MLST directly from uncorrected long reads☆27Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- Split Kmer Analysis☆62Updated 2 years ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆43Updated last year
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆60Updated 2 months ago
- ☆52Updated 3 years ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 6 years ago
- Sorts amplicons from Nanopore sequencing data based on similarity☆35Updated last week
- Fast genealogical relationship evaluation of bacterial isolates with WGS data.☆12Updated 3 years ago
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- ☆45Updated 2 months ago
- IS mapping software☆53Updated 3 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆59Updated 3 weeks ago
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆40Updated 4 months ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆29Updated 5 years ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- EzAAI - High Throughput Prokaryotic AAI Calculator☆38Updated 5 months ago
- SC2 variant detection and composition pipeline☆17Updated last year
- GTDB taxonomy taxdump files with trackable TaxIds☆52Updated 11 months ago