fastreeR
Calculate distances, build phylogenetic trees or perform hierarchical clustering between the samples of a VCF or FASTA file. Functions are implemented in Java-11 and called via rJava. Parallel implementation that operates directly on the VCF or FASTA file for fast execution.
README
fastreeR: Fast Tree Reconstruction Tools for Genomics (VCF/FASTA to Distance/Tree) fastreeR is a hybrid toolkit combining a high-performance Java backend (BioInfoJava-Utils, a modular Java library for bioinformatics pipelines) with flexible and user-friendly interfaces across multiple platforms and environments, enabling seamless integration into a variety of genomic workflows. It enables fast computation of distance matrices and phylogenetic trees from genetic variant data in VCF or genomic…
- Repository
- github.com/gkanogiannis/fastreer
Source attribution
- GitHub — github.com/gkanogiannis/fastreer
- Bioconductor — fastreeR
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