phac-nml / sistr_cmdLinks
SISTR (Salmonella In Silico Typing Resource) command-line tool
☆31Updated 4 months ago
Alternatives and similar repositories for sistr_cmd
Users that are interested in sistr_cmd are comparing it to the libraries listed below
Sorting:
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Updated last year
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆42Updated 4 years ago
- whole genome MLST analysis☆46Updated 2 months ago
- SeqSero2☆38Updated last year
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 6 months ago
- ☆36Updated 3 years ago
- ☆20Updated 11 months ago
- Identify phage regions in bacterial genomes for masking purposes☆34Updated 5 years ago
- A tool for removing redundant genomes from a set of assemblies☆76Updated 2 years ago
- all methods related to Enterobase☆43Updated 11 months ago
- a collection of scripts for organising bacterial genomes by species☆77Updated 3 years ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆46Updated 2 years ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆80Updated last year
- A MinION-based pipeline for tracking species biodiversity☆13Updated last year
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆34Updated 2 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆73Updated 2 months ago
- Code Safety Inspection Service☆20Updated 2 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆60Updated 2 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆49Updated 2 months ago
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆49Updated 9 months ago
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Taxonomic classification of viruses at Order and Family level☆20Updated 2 years ago
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆29Updated this week
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 4 years ago
- Order and orientation of complete bacterial genomes☆28Updated last month
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 4 years ago