sanger-pathogens / ariba
Antimicrobial Resistance Identification By Assembly
☆173Updated last year
Alternatives and similar repositories for ariba:
Users that are interested in ariba are comparing it to the libraries listed below
- "Reads to report" for public health and clinical microbiology☆138Updated 11 months ago
- BSR-Based Allele Calling Algorithm☆140Updated last week
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆134Updated 4 months ago
- An updated pipeline for pangenome investigation☆282Updated this week
- Pairwise SNP distance matrix from a FASTA sequence alignment☆129Updated 11 months ago
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆217Updated 2 years ago
- Pan-genome wide association studies☆183Updated 8 months ago
- Making whole bacterial genome sequencing data analysis easy☆103Updated 3 months ago
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆202Updated 2 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆314Updated 8 months ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆111Updated last month
- A tool to circularize genome assemblies☆236Updated 10 months ago
- Bacterial ribosomal RNA predictor☆234Updated last year
- DAS Tool☆146Updated 9 months ago
- The ARTIC field bioinformatics pipeline☆120Updated last week
- Short Read Sequence Typing for Bacterial Pathogens☆126Updated 3 years ago
- Processing pipeline for pan-genome visulization and exploration☆137Updated last year
- snipit: summarise snps relative to your reference sequence☆153Updated 3 weeks ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆120Updated 11 months ago
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆157Updated last year
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆112Updated 9 months ago
- Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics☆182Updated last week
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆182Updated last month
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆116Updated 3 weeks ago
- Antibiotic resistance prediction in minutes☆107Updated 2 months ago
- Pipeline for metabolic annotation of microbial genomes☆142Updated 7 months ago
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆202Updated 2 years ago
- Metagenomic classification of long-read sequencing data☆75Updated last week
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆172Updated 3 years ago
- In this repo you will find demos and tutorials prepared by members of the CBIB. Feel free to use them for non-commercial activities given…☆82Updated 6 years ago