niemasd / TreeClusterLinks
Efficient phylogenetic clustering of viral sequences
☆88Updated last year
Alternatives and similar repositories for TreeCluster
Users that are interested in TreeCluster are comparing it to the libraries listed below
Sorting:
- CLI tool to annotate genes with KOfam☆85Updated 2 years ago
- ARTIC SARS-CoV-2 workflow and reporting☆50Updated 3 months ago
- Collection of scripts for bacterial genomics☆47Updated 5 years ago
- Small variant calling for haploid samples☆38Updated 2 weeks ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆100Updated last week
- Efficient phylogenetic tree inference for massive taxonomic datasets☆123Updated 4 months ago
- Python tool to reduce size and redundancy of phylogenetic datasets☆44Updated 2 years ago
- Follow up to Grace Blackwell's 661k dataset, for 2023☆109Updated last month
- SEER, reimplemented in python 🐍🔮☆123Updated 2 months ago
- Simple bacterial assembly and annotation pipeline☆76Updated last week
- An R package designed for drawing gene arrow maps☆84Updated 2 weeks ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆70Updated 3 months ago
- A bioinformatic toolkit to align genome assemblies into pangenome graphs☆111Updated this week
- a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference☆77Updated 2 months ago
- Precise host read removal☆103Updated last month
- Massively parallel phylogenetic placement of genetic sequences☆84Updated 2 years ago
- Detection of incorrectly labeled sequences across kingdoms☆85Updated 2 years ago
- viralVerify: viral contig verification tool☆71Updated 3 years ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆50Updated last month
- Exploring the "dusk matter" of the RNA virosphere☆35Updated 3 years ago
- Antibiotic resistance prediction in minutes☆110Updated 8 months ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆48Updated 3 years ago
- Microbiome classification pipeline☆66Updated 2 months ago
- Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes☆87Updated 2 months ago
- GTDB taxonomy taxdump files with trackable TaxIds☆56Updated 3 months ago
- FastOMA is a scalable software package to infer orthology relationship.☆78Updated last month
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 3 years ago
- A toolkit for analyzing and visualizing phylogenetic placement data☆62Updated 5 months ago
- PHANOTATE: a gene caller for phages.☆78Updated 8 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆115Updated last year