GenomicsAotearoa / environmental_metagenomics
A quick workflow to get researchers started with the bioinformatic pipeline used in the Environmental Metagenomics program.
☆11Updated 3 months ago
Alternatives and similar repositories for environmental_metagenomics
Users that are interested in environmental_metagenomics are comparing it to the libraries listed below
Sorting:
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆22Updated 2 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆27Updated 6 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- Calculate assocations between genes and traits☆23Updated 2 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated 2 months ago
- Tools for extracting individual genomes from metagenomes☆17Updated last year
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.☆13Updated last month
- ☆13Updated last year
- ☆20Updated 8 months ago
- ☆25Updated last year
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆28Updated this week
- MAG Circularization Method☆33Updated 2 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- Hybrid Assembler for Plasmids☆10Updated 2 years ago
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆21Updated 2 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Updated 7 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- ☆13Updated 7 years ago
- Bacterial GWAS analysis☆40Updated 3 weeks ago
- Resolving Species Level Classification Using Emu☆12Updated 11 months ago
- ☆13Updated 7 years ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆18Updated 2 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆24Updated 9 months ago
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago