bhattlab / phantaLinks
Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
☆63Updated 3 months ago
Alternatives and similar repositories for phanta
Users that are interested in phanta are comparing it to the libraries listed below
Sorting:
- ☆27Updated last year
- ☆45Updated 2 years ago
- A package to annotate protein sequences☆58Updated 4 months ago
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆37Updated 6 months ago
- ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…☆30Updated 5 months ago
- Set of utilities on sequences and BAM files☆27Updated 3 years ago
- KEGG Module Evaluation Tool☆30Updated last year
- A pipeline to computationally identify invertible DNA regions and quantify their orientations.☆29Updated last year
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆37Updated 2 months ago
- Scalable creating/updating of metagenome profiling databases☆61Updated 2 years ago
- Automatic eukaryotic taxonomic classification☆29Updated last month
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated 2 years ago
- ☆54Updated 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
- ☆41Updated 4 years ago
- Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.☆24Updated 8 months ago
- Improvement of metagenome-assembled genomes☆53Updated 5 years ago
- IslandPath standalone software☆32Updated last year
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆35Updated 3 years ago
- OPAL: Open-community Profiling Assessment tooL☆28Updated 5 months ago
- Bacterial GWAS analysis☆40Updated last month
- Downstream processing of VAMB binning for Viral Elucidation☆50Updated 11 months ago
- SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.☆23Updated 2 months ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆42Updated 8 months ago
- Unified Human Gut Virome Catalog☆32Updated 11 months ago
- Prophage Activity Estimator☆26Updated last year
- BiG-MEx implementation as Docker images and R packages☆13Updated 3 years ago
- This repository contains scripts used in the manuscript "Massive expansion of human gut bacteriophage diversity"☆20Updated 4 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆54Updated last month