pollardlab / MIDAS
Metagenomic Intra-Species Diversity Analysis (MIDAS)
☆37Updated 7 months ago
Alternatives and similar repositories for MIDAS:
Users that are interested in MIDAS are comparing it to the libraries listed below
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆34Updated 2 months ago
- Improvement of metagenome-assembled genomes☆51Updated 5 years ago
- Assessing and Improving the quality of metagenomic assemblies☆28Updated 3 years ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago
- MAG Circularization Method☆33Updated 2 years ago
- MinPath (Minimal set of Pathways) is a parsimony approach for biological pathway reconstructions using protein family predictions, achiev…☆20Updated 3 years ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- Metagenomics-related extended functionalities to samtools☆21Updated last year
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆21Updated last year
- MAGScoT - a MAG scoring and refinement tool☆34Updated 6 months ago
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆17Updated 5 months ago
- Strain Prediction and Analysis with Representative SEquence☆18Updated 4 months ago
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆18Updated 3 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆27Updated 2 months ago
- scripts for microbiome analysis☆11Updated 8 months ago
- strain-level analysis tools☆36Updated 5 months ago
- KEGG Module Evaluation Tool☆29Updated last year
- Bacterial GWAS analysis☆39Updated last week
- Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.☆24Updated 6 months ago
- Automatic eukaryotic taxonomic classification☆28Updated last month
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆23Updated 8 months ago
- Strain Resolution ON Graphs☆47Updated last year
- Discover and annotate the virome☆40Updated this week
- 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
- ☆24Updated 6 years ago
- OPAL: Open-community Profiling Assessment tooL☆28Updated 3 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 9 months ago
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated 3 weeks ago
- Microbial agile accurate SNP Typer☆29Updated last year