flass / pantagruelLinks
a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
☆49Updated 2 years ago
Alternatives and similar repositories for pantagruel
Users that are interested in pantagruel are comparing it to the libraries listed below
Sorting:
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆58Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- MAG Circularization Method☆32Updated 3 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆66Updated 3 years ago
- Gene-flank analysis tool☆30Updated 9 months ago
- BEAV: Bacterial Element Annotation reVamped☆68Updated 3 weeks ago
- Bacterial GWAS analysis☆43Updated last month
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Recombination-free trees☆60Updated 2 weeks ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆62Updated last week
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Automatic eukaryotic taxonomic classification☆28Updated 4 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 6 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated last week
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆26Updated 3 years ago
- Metagenomic Analysis in Real Time☆28Updated last week
- Intra-species bacterial contamination detection☆25Updated 7 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- IslandPath standalone software☆33Updated last year
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- Discover and annotate the virome☆49Updated 3 weeks ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆38Updated 10 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆30Updated 10 months ago
- Gene Absence Presence Identification tool.☆27Updated 5 months ago
- ☆23Updated 2 years ago
- Order and orientation of complete bacterial genomes☆28Updated 2 months ago