zheminzhou / SPARSELinks
Strain Prediction and Analysis with Representative SEquence
☆19Updated last year
Alternatives and similar repositories for SPARSE
Users that are interested in SPARSE are comparing it to the libraries listed below
Sorting:
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- MAG Circularization Method☆32Updated last month
- Phylogeny Enhanded Prediction of PAN-genome☆43Updated 5 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 5 years ago
- Calculate assocations between genes and traits☆29Updated 9 months ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 8 years ago
- strain-level analysis tools☆39Updated last year
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆37Updated last year
- ☆20Updated 8 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆15Updated 3 years ago
- ☆18Updated 3 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆48Updated last week
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 2 years ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆40Updated last year
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Intra-species bacterial contamination detection☆25Updated 9 months ago
- Discover and annotate the virome☆54Updated last month
- Gene-flank analysis tool☆34Updated 11 months ago
- MAGScoT - a MAG scoring and refinement tool☆39Updated last year