SionBayliss / PIRATE
A toolbox for pangenome analysis and threshold evaluation.
☆90Updated 2 years ago
Related projects: ⓘ
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆94Updated this week
- A scalable bacterial genome assembly, annotation and analysis pipeline☆70Updated 9 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆105Updated 3 months ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆77Updated 10 months ago
- a collection of scripts for organising bacterial genomes by species☆75Updated 2 years ago
- Synteny Imager☆60Updated 3 weeks ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆68Updated last month
- Foreign Contamination Screening caller scripts and documentation☆100Updated 3 months ago
- Interactive quality assessment of genome assemblies☆84Updated last month
- Metagenomic classification of long-read sequencing data☆55Updated this week
- ☆78Updated last year
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 3 years ago
- A toolbox for comparative genomics.☆94Updated 3 years ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆105Updated 10 months ago
- Collection of scripts for bacterial genomics☆42Updated 4 years ago
- IS mapping software☆50Updated 2 years ago
- A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework☆76Updated 3 months ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆89Updated last week
- MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data☆88Updated 5 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)☆79Updated 2 weeks ago
- Supporting code for uncultivated gut virus manuscript☆64Updated last year
- ☆31Updated 2 weeks ago
- Making whole bacterial genome sequencing data analysis easy☆98Updated last year
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 3 months ago
- DDBJ Fast Annotation and Submission Tool☆76Updated 3 weeks ago
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆68Updated 2 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆37Updated 3 years ago
- A tool for the identification of coincident (associating and dissociating) genes in pangenomes.☆92Updated 11 months ago
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 4 years ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆106Updated last month