FredHutch / nf-anvio-pangenome
Analyze a set of genomes with the anvi'o pangenome pipeline
☆17Updated last year
Alternatives and similar repositories for nf-anvio-pangenome:
Users that are interested in nf-anvio-pangenome are comparing it to the libraries listed below
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Updated 3 months ago
- hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance☆22Updated last year
- Maximum Likelihood Amplicon Pipeline☆22Updated 10 months ago
- MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.☆15Updated 2 years ago
- Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samples☆13Updated 3 years ago
- Strain Prediction and Analysis with Representative SEquence☆18Updated 3 months ago
- Tools for analyzing trees☆14Updated last year
- 2025 RAD microbes boot camp☆10Updated last week
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 2 years ago
- Dadaist2 🟨 Highway to R☆13Updated 2 weeks ago
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Updated last year
- A Shotgun Metagenome Annotation Pipeline☆23Updated 8 years ago
- Influenza genome analysis Nextflow workflow☆21Updated 2 months ago
- screening metagenomes for arbitrary lineages, using gene-centric assembly methods and phylogenetics☆11Updated 4 years ago
- MAG Circularization Method☆33Updated 2 years ago
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Download assembly files from NCBI☆12Updated last year
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆22Updated 8 months ago
- Snakemake workflow to map and quantify microbial genomes in metagenomic reads☆11Updated last year
- A pipeline for whole genome assembly☆16Updated 2 years ago
- Factorize metagenotypes to infer strains and their abundances☆11Updated 5 months ago
- Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and host…☆21Updated 11 months ago
- ☆22Updated last year
- De novo VIral Genome Annotator☆21Updated 6 months ago
- Splitting and accelerating the Oxford Nanopore basecaller guppy using CPU with the SLURM job scheduler☆15Updated 8 months ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆28Updated 8 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated 2 years ago