flass / pantagruelLinks
a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
☆50Updated 3 years ago
Alternatives and similar repositories for pantagruel
Users that are interested in pantagruel are comparing it to the libraries listed below
Sorting:
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Predict plasmids from uncorrected long read data☆41Updated 5 years ago
- BEAV: Bacterial Element Annotation reVamped☆70Updated 2 months ago
- Bacterial GWAS analysis☆45Updated 3 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- ☆28Updated 9 months ago
- MAG Circularization Method☆32Updated 3 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 2 years ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆38Updated last year
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 7 months ago
- Calculate assocations between genes and traits☆28Updated 7 months ago
- Recombination-free trees☆60Updated last month
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Metagenomic Analysis in Real Time☆28Updated this week
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆31Updated last month
- Discover and annotate the virome☆53Updated last week
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 8 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆63Updated 2 weeks ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- ☆13Updated 8 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆67Updated 3 years ago
- Automatic eukaryotic taxonomic classification☆28Updated 5 months ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 3 years ago
- Gene Absence Presence Identification tool.☆27Updated 7 months ago