statdivlab / happiLinks
A Hierarchical Approach to Pangenomics Inference
☆11Updated last year
Alternatives and similar repositories for happi
Users that are interested in happi are comparing it to the libraries listed below
Sorting:
- Snakemake workflow to map and quantify microbial genomes in metagenomic reads☆12Updated last year
- Prediction of microbial interactions in complex communities☆12Updated 9 months ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆14Updated last year
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆18Updated 3 years ago
- ☆25Updated last year
- Automatic eukaryotic taxonomic classification☆28Updated 3 weeks ago
- Identify and remove contaminants from metagenome-assembled genomes☆18Updated last year
- SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.☆20Updated 2 months ago
- ☆16Updated 4 years ago
- MDMcleaner the assessment, classification and refinement tool for microbial dark matter SAGs and MAGs☆24Updated 2 years ago
- ☆22Updated 2 years ago
- Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin☆15Updated 8 months ago
- MAG Circularization Method☆33Updated 3 years ago
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆22Updated 10 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- scripts for microbiome analysis☆11Updated 10 months ago
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆32Updated 9 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆30Updated 2 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆29Updated 4 months ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- Accurate and robust inference of microbial growth dynamics from metagenomic sequencing☆19Updated 3 years ago
- Identifying misassemblies via deep learning☆11Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- http://huttenhower.sph.harvard.edu/waafle☆16Updated 5 months ago
- Phasing for metagenomics using PacBio long reads☆17Updated 3 years ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- ☆13Updated last year
- Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes☆11Updated 11 months ago