katiesaund / hogwashLinks
Three bacterial GWAS methods all rolled into one easy-to-use R package
☆22Updated last year
Alternatives and similar repositories for hogwash
Users that are interested in hogwash are comparing it to the libraries listed below
Sorting:
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- Bacterial GWAS analysis☆45Updated this week
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 2 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- Gene-flank analysis tool☆33Updated 10 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆46Updated 2 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆30Updated last year
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆35Updated last month
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Genomewide Epistasis Analysis on Bacteria☆14Updated 5 months ago
- Discover and annotate the virome☆53Updated 2 weeks ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆62Updated 2 years ago
- Set of utilities on sequences and BAM files☆26Updated 4 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆59Updated last week
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆38Updated 2 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆63Updated 5 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆41Updated last week
- Predict plasmids from uncorrected long read data☆41Updated 5 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- MAGScoT - a MAG scoring and refinement tool☆37Updated last year
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆67Updated 3 years ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- A toolkit for prokaryotic comparative genomics☆51Updated 2 weeks ago
- The Prokaryotic Genomics and Comparative Genomics Analysis Pipeline☆39Updated 2 years ago