phylovi / bitoLinks
Python-interface C++ library for Bayesian phylogenetics via optimization
☆38Updated last year
Alternatives and similar repositories for bito
Users that are interested in bito are comparing it to the libraries listed below
Sorting:
- Phylogenetic inference using Stan☆24Updated 3 months ago
- ☆13Updated 7 months ago
- Calculate indel trajectory likelihoods using methods of Miklós, Lunter & Holmes (2004), De Maio (2020), and Holmes (2020)☆14Updated 2 years ago
- [mu]tation [s]pectrum [h]istory [i]nference☆25Updated 4 months ago
- Epidemiological modeling framework for pathogen population genetics and evolution.☆17Updated 8 months ago
- Calculate distances between phylogenetic trees in R☆33Updated 3 weeks ago
- Proteins as words, genomes as documents.☆20Updated 4 years ago
- Work for the tree sequence inference paper.☆23Updated 4 years ago
- A probabilistic framework in PyTorch for phylogenetic models☆16Updated 6 months ago
- Phylogenetic Likelihood Library☆28Updated 4 years ago
- Multinomial Logistic-Normal Models (really fast)☆21Updated 3 months ago
- Implementation of the treeSeg algorithm as an R package.☆14Updated 3 years ago
- FFPopSim is a collection of C++ classes and a Python interface for efficient simulation of large populations, in particular when the prod…☆14Updated 2 weeks ago
- A book for my course☆17Updated 6 months ago
- phylogenetic analyses informed by deep mutational scanning data☆14Updated 11 months ago
- Sampling and manipulating genome-wide ancestral recombination graphs (ARGs)☆54Updated 9 years ago
- K-mer Counting for Biological Sequence Analysis☆27Updated 6 years ago
- ☆12Updated 6 years ago
- kProcessor: kmers processing framework.☆11Updated last year
- Analyzing RNA-Seq with approximate likelihood☆26Updated 4 years ago
- genotype dimensionality reduction with a VAE☆45Updated 2 months ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Updated 3 years ago
- ☆17Updated this week
- Python bindings for Bifrost's compacted colored de Bruijn Graph with a NetworkX-compatible API☆28Updated last year
- Paired reads mapping on de Bruijn graph☆13Updated 6 years ago
- Tutorial on Bayesian phylogenetic analysis☆46Updated 7 years ago
- Quantitative Trait Cluster Association Test in R☆25Updated 4 years ago
- MAVE-NN: genotype-phenotype maps from multiplex assays of variant effect☆27Updated this week
- ngshmmalign is a profile HMM aligner for NGS reads designed particularly for small genomes (such as those of RNA viruses like HIV-1 and H…☆10Updated 7 years ago
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆39Updated 3 weeks ago