SionBayliss / PIRATELinks
A toolbox for pangenome analysis and threshold evaluation.
☆101Updated 3 years ago
Alternatives and similar repositories for PIRATE
Users that are interested in PIRATE are comparing it to the libraries listed below
Sorting:
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆88Updated 2 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆75Updated last year
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆116Updated last year
- A pipeline for running AMRfinderPlus and collating results into functional classes☆87Updated last week
- Making whole bacterial genome sequencing data analysis easy☆113Updated 6 months ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆146Updated last month
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆121Updated 2 weeks ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆79Updated 2 years ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆75Updated last year
- CLI tool to annotate genes with KOfam☆85Updated 2 years ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- ☆84Updated 2 years ago
- Horizontal gene transfer (HGT) identification pipeline☆63Updated 2 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆100Updated 3 months ago
- DDBJ Fast Annotation and Submission Tool☆83Updated 2 months ago
- IS mapping software☆57Updated 3 years ago
- GraftM - Rapid community profiles from metagenomes☆47Updated 2 weeks ago
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆61Updated 6 years ago
- a collection of scripts for organising bacterial genomes by species☆81Updated 3 years ago
- Prediction of prophages from bacterial genomes☆82Updated 5 months ago
- WtP: Phage identification via nextflow and docker or singularity☆105Updated last week
- Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted file☆73Updated last year
- Detection of pseudogene candidates in bacterial and archaeal genomes.☆51Updated last year
- Long-read metagenomic analysis☆106Updated 2 years ago
- A toolbox for comparative genomics.☆106Updated 4 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆63Updated 8 months ago
- Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes☆170Updated this week
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆59Updated last year
- Reorients assembled microbial sequences☆129Updated 2 months ago