JLSteenwyk / PhyKITLinks
a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies
☆73Updated last month
Alternatives and similar repositories for PhyKIT
Users that are interested in PhyKIT are comparing it to the libraries listed below
Sorting:
- ☆71Updated last month
- STAG: Species Tree from All Genes☆34Updated 6 years ago
- Alignment-based retrieval and concatenation of phylogenetic markers from whole genome sequence (WGS) data☆36Updated last year
- Gene tree - species tree reconciliation from gene tree distributions☆31Updated last month
- PhyloFisher is a software package written in Python3 that can be used for the creation, analysis, and visualization of phylogenomic datas…☆32Updated last week
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆59Updated last year
- A massively parallel tool for model selection and tree inference on thousands of genes☆50Updated last year
- BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins☆72Updated 9 months ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 5 years ago
- Bifrost graph gene caller.☆95Updated 9 months ago
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆34Updated last year
- FastOMA is a scalable software package to infer orthology relationship.☆77Updated last week
- The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.☆43Updated last week
- spruceup☆24Updated 10 months ago
- Synteny Imager☆63Updated 10 months ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆70Updated 3 weeks ago
- Pangenome analysis of eukaryotes.☆18Updated 4 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 4 months ago
- Wrapper for the genoPlotR R package. This wrapper makes phylogeny, genbank files and blast comparisons that is needed for the genoPLotR p…☆14Updated 3 years ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆42Updated last week
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆59Updated 3 months ago
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆32Updated 3 years ago
- Implementation of the TreeShrink problem☆46Updated 10 months ago
- Alignment-Based Sequence extraction☆15Updated 3 years ago
- ☆74Updated last week
- A comparative genomics workflow using Nextflow, conda, Julia and R☆45Updated last year
- Automatic evaluation of HGTs☆30Updated 5 months ago
- tools for assessing the accuracy of genome assemblies☆34Updated last year
- Python tool to reduce size and redundancy of phylogenetic datasets☆43Updated 2 years ago
- Genome-Genome circle synteny☆25Updated last year