liaoherui / StrainScan
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
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆21Updated last year
- Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.☆24Updated 7 months ago
- KEGG Module Evaluation Tool☆29Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 3 weeks ago
- Prophage Activity Estimator☆26Updated 11 months ago
- MAG Circularization Method☆33Updated 2 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆29Updated 3 months ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆40Updated 7 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆45Updated 3 weeks ago
- ☆32Updated last year
- Unified Human Gut Virome Catalog☆31Updated 9 months ago
- 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
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆34Updated 3 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Downstream processing of VAMB binning for Viral Elucidation☆49Updated 10 months ago
- Assessing and Improving the quality of metagenomic assemblies☆28Updated 3 years ago
- A python library for predicting phage lifestyle based on genome sequence☆37Updated last year
- This repository contains scripts used in the manuscript "Massive expansion of human gut bacteriophage diversity"☆20Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- Discover and annotate the virome☆42Updated last month
- IslandPath standalone software☆32Updated last year
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- MAGScoT - a MAG scoring and refinement tool☆35Updated 7 months ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆43Updated 2 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Automatic eukaryotic taxonomic classification☆28Updated last week
- A simple program to classify the lifestyle of phages.☆17Updated last year
- ☆18Updated 3 years ago