liaoherui / StrainScanLinks
High-resolution strain-level microbiome composition analysis tool based on reference genomes and k-mers
☆40Updated last year
Alternatives and similar repositories for StrainScan
Users that are interested in StrainScan are comparing it to the libraries listed below
Sorting:
- Improvement of metagenome-assembled genomes☆52Updated 5 years ago
- MAG Circularization Method☆33Updated 3 years ago
- KEGG Module Evaluation Tool☆29Updated last year
- Downstream processing of VAMB binning for Viral Elucidation☆50Updated 11 months ago
- ☆32Updated last year
- Assessing and Improving the quality of metagenomic assemblies☆29Updated 3 years ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆21Updated last year
- Unified Human Gut Virome Catalog☆31Updated 10 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
- Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.☆24Updated 8 months ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆34Updated 3 years ago
- Prophage Activity Estimator☆26Updated last year
- Automatic eukaryotic taxonomic classification☆28Updated 3 weeks ago
- This repository contains scripts used in the manuscript "Massive expansion of human gut bacteriophage diversity"☆20Updated 4 years ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 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 Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data☆14Updated 3 months ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Strain Resolution ON Graphs☆47Updated last year
- EzAAI - High Throughput Prokaryotic AAI Calculator☆41Updated 7 months ago
- ☆45Updated last year
- MAGScoT - a MAG scoring and refinement tool☆35Updated 7 months ago
- ☆21Updated 4 months ago
- ☆16Updated 4 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆45Updated last week
- IslandPath standalone software☆32Updated last year
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆37Updated last month
- Trans-Kingdom Marker Gene Pipeline for Taxonomic Profiling of Human Metagenomes☆19Updated last year