aberer / RogueNaRokLinks
A versatile and scalable algorithm for rogue taxon identification. Also includes implementations of the maximum agreement subtree, leaf stability index and taxonomic instability index
☆23Updated 4 years ago
Alternatives and similar repositories for RogueNaRok
Users that are interested in RogueNaRok are comparing it to the libraries listed below
Sorting:
- spruceup☆25Updated 3 months ago
- Two-dimensional outlier detection algorithm for pinpointing errors in small species-specific stretches of the multiple sequence alignment…☆14Updated last year
- ☆22Updated 11 years ago
- A tool to identify and annotate homoplasies on a phylogeny and sequence alignment☆20Updated 4 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- Phylogenetic penalized likelihood☆54Updated 4 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- A bioinformatics package for creating, filtering, and manipulating supermatrices and phylogenetic datasets using GenBank and/or local seq…☆44Updated last year
- Inferring global and local strict molecular clocks using root-to-tip regression☆13Updated last week
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆35Updated 2 years ago
- Code for computing various support scores for internodes☆19Updated 5 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 5 months ago
- A set of scripts for calculating pairwise SNP distance☆43Updated 2 years ago
- Visualizing gene tree conflict using Phyparts, and ETE3☆14Updated 2 years ago
- Recombination-free trees☆60Updated 2 months ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆68Updated 3 years ago
- use paired-end transcriptome reads to scaffold genomes☆11Updated 6 years ago
- A comprehensive and intuitive encapsulated OO class system for analyzing bacterial pangenomes in R.☆28Updated 2 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Predict plasmids from uncorrected long read data☆41Updated 3 weeks ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Updated 8 months ago
- A tool to root phylogenies☆23Updated last year
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 2 months ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 6 years ago
- Simple scripts for concatenate alignments and rename terminals for phylogenetics☆22Updated 3 years ago
- Gene tree - species tree reconciliation from gene tree distributions☆35Updated this week
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆14Updated 3 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 2 years ago
- Bacterial GWAS analysis☆46Updated 3 weeks ago
- Alignment-Based Sequence extraction☆15Updated 3 years ago