
HyDe
 Referenced in 2 articles
[sw29663]
 producing a set of functions called phylogenetic invariants. In this article, we introduce HyDe ... software package for detecting hybridization using phylogenetic invariants arising under the coalescent model with hybridization...

ProtTest 3
 Referenced in 4 articles
[sw23032]
 maximum likelihood (ML) estimation of phylogenetic trees and model parameters. The current version of ProtTest ... consider rate variation among sites (+I: invariable sites; +G: gammadistributed rates) and the observed...

GARLI
 Referenced in 1 article
[sw29598]
 rapid likelihood inference. GARLI performs heuristic phylogenetic searches under the General Time Reversible (GTR) model ... distributed rate heterogeneity and a proportion of invariant sites. The implementation of this model...

CoMeta
 Referenced in 2 articles
[sw25789]
 Comparison of metabolic pathways is useful in phylogenetic analysis and for understanding metabolic functions when ... pathways and comparing the corresponding $T$invariant bases, which represent minimal subsets of reactions that...

ATLAS
 Referenced in 198 articles
[sw00056]
 This paper describes the Automatically Tuned Linear Algebra...

Cuba
 Referenced in 66 articles
[sw00173]
 Cuba  a library for multidimensional numerical integration. The...

GAP
 Referenced in 3068 articles
[sw00320]
 GAP is a system for computational discrete algebra...

Macaulay2
 Referenced in 1841 articles
[sw00537]
 Macaulay2 is a software system devoted to supporting...

Magma
 Referenced in 3137 articles
[sw00540]
 Computer algebra system (CAS). Magma is a large...

Maple
 Referenced in 5296 articles
[sw00545]
 The result of over 30 years of cutting...

Mathematica
 Referenced in 6235 articles
[sw00554]
 Almost any workflow involves computing results, and that...

Matlab
 Referenced in 13100 articles
[sw00558]
 MATLAB® is a highlevel language and interactive...

MiniSat
 Referenced in 558 articles
[sw00577]
 An extensible SATsolver. MiniSat is a minimalistic...

NetworkX
 Referenced in 141 articles
[sw00616]
 NetworkX (NX) is a Python package for the...

Normaliz
 Referenced in 159 articles
[sw00630]
 Normaliz is a tool for computations in affine...

polymake
 Referenced in 312 articles
[sw00724]
 polymake is open source software for research in...

R
 Referenced in 9188 articles
[sw00771]
 R is a language and environment for statistical...

SageMath
 Referenced in 1859 articles
[sw00825]
 Sage (SageMath) is free, opensource math software...

SINGULAR
 Referenced in 1472 articles
[sw00866]
 SINGULAR is a Computer Algebra system (CAS) for...

TSPLIB
 Referenced in 687 articles
[sw00983]
 TSPLIB is a library of sample instances for...