iqtree / iqtree2
IQ-TREE software version 2: phylogenetics by maximum likelihood
☆283Updated last week
Alternatives and similar repositories for iqtree2:
Users that are interested in iqtree2 are comparing it to the libraries listed below
- Eukaryotic Genome Annotation Pipeline☆346Updated 2 months ago
- A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0☆202Updated this week
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆400Updated 3 months ago
- NCBI Prokaryotic Genome Annotation Pipeline☆337Updated this week
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆506Updated last month
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆371Updated 8 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆320Updated 11 months ago
- Fast Whole-Genome Similarity (ANI) Estimation☆400Updated last year
- Scan contig files against PubMLST typing schemes☆223Updated 2 years ago
- RAxML Next Generation: faster, easier-to-use and more flexible☆422Updated this week
- An updated pipeline for pangenome investigation☆297Updated 2 months ago
- Mummer alignment tool☆501Updated 3 months ago
- Synteny and Rearrangement Identifier☆380Updated last week
- Tools for fast and flexible genome assembly scaffolding and improvement☆506Updated last year
- the pangenome graph builder☆427Updated this week
- breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA resequencing data. It is inte…☆161Updated last month
- Pilon is an automated genome assembly improvement and variant detection tool☆362Updated 3 years ago
- Bacterial ribosomal RNA predictor☆243Updated last year
- Build a partitioned pangenome graph from microbial genomes☆265Updated this week
- Rapid comparison and dereplication of genomes☆287Updated 3 weeks ago
- Rapid large-scale prokaryote pan genome analysis☆344Updated 3 years ago
- hybrid assembly pipeline for bacterial genomes☆596Updated 9 months ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆308Updated 2 months ago
- PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. Please report only **techni…☆151Updated 2 weeks ago
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆365Updated this week
- ☆255Updated this week
- quality filtering tool for long reads☆329Updated last year
- Fast and accurate de novo assembler for long reads☆387Updated last year
- customizable pipeline to identify viral sequences from (meta)genomic data☆247Updated 5 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆338Updated last year