carolzhou / multiPhATE2
multiPhATE with comparative genomics
☆18Updated 3 years ago
Related projects ⓘ
Alternatives and complementary repositories for multiPhATE2
- Automatic eukaryotic taxonomic classification☆28Updated last month
- ☆16Updated 4 years ago
- Phasing for metagenomics using PacBio long reads☆17Updated 3 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 5 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆36Updated 10 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆29Updated last year
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆25Updated last month
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 2 years ago
- Whole genome core alignments from multiple draft genomes☆12Updated 8 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- Identifying misassemblies via deep learning☆11Updated 6 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated last year
- MAG Circularization Method☆33Updated 2 years ago
- SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.☆17Updated last month
- MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.☆14Updated 2 years ago
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆22Updated 4 months ago
- MAGScoT - a MAG scoring and refinement tool☆28Updated last month
- Resolving Species Level Classification Using Emu☆12Updated 4 months ago
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆18Updated 2 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Strain Prediction and Analysis with Representative SEquence☆18Updated last week
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆24Updated last week
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆40Updated last week
- Tools for extracting individual genomes from metagenomes☆17Updated 11 months ago
- Bacterial GWAS analysis☆31Updated last month
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆18Updated 2 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆22Updated 3 months ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 3 months ago
- A toolkit for prokaryotic comparative genomics☆25Updated 2 months ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆24Updated 7 months ago