GenomicsAotearoa / environmental_metagenomicsLinks
A quick workflow to get researchers started with the bioinformatic pipeline used in the Environmental Metagenomics program.
☆11Updated 4 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 2 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Updated 7 years ago
- Calculate assocations between genes and traits☆23Updated 3 months ago
- ☆13Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last week
- A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.☆14Updated 3 months ago
- MAG Circularization Method☆33Updated 3 years ago
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- ☆13Updated 7 years ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆22Updated 3 years ago
- Hybrid Assembler for Plasmids☆10Updated 2 years ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- ZGA prokaryotic genome assembly and annotation pipeline☆12Updated 9 months ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆12Updated last year
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆31Updated 4 months ago
- Resolving Species Level Classification Using Emu☆13Updated last year
- scripts for microbiome analysis☆11Updated 11 months ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Updated 5 years ago
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆22Updated 2 years ago
- Prophage Activity Estimator☆26Updated last year
- Gene-flank analysis tool☆27Updated 6 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆28Updated 8 months ago
- Intra-species bacterial contamination detection☆25Updated 4 months ago
- ☆26Updated 2 years ago
- ☆20Updated 9 months ago