• Leafsnap

  • Referenced in 4 articles [sw15540]
  • visual recognition. The system – called Leafsnap – identifies tree species from photographs of their leaves ... scales, and identifying the species from a dataset of the 184 trees in the Northeastern...
  • Phylo-MCOA

  • Referenced in 2 articles [sw18727]
  • efficient method to detect outlier genes and species in phylogenomics using multiple co-inertia analysis ... infer phylogenetic trees, but there are often discordances among the trees produced by different genes ... identify which individual gene and species produce the same phylogenetic tree and are thus likely ... also essential to identify which genes and species produce discordant topologies and therefore evolve...
  • PANTHER

  • Referenced in 15 articles [sw22973]
  • made at any node in the tree, and are designed to represent gain and loss ... evolution. Finally, PANTHER now includes stable database identifiers for inferred ancestral genes, which are used ... common ancestral genomes of extant species...
  • phytools

  • Referenced in 14 articles [sw10003]
  • phylogenetic analysis of comparative data from species. For example, the package includes functions for Bayesian ... identifying the location of a change in the rate of character evolution on the tree...
  • ApLeaf

  • Referenced in 1 article [sw14332]
  • designed to automatically identify plant species according to the photographs of tree leaves is described...
  • CAFE

  • Referenced in 3 articles [sw12375]
  • specified phylogenetic tree, and given the gene family sizes in the extant species, CAFE ... gene family size at all internal nodes, identify gene families that have accelerated rates...
  • Mugsy

  • Referenced in 4 articles [sw16994]
  • number of sequenced genomes for species across the tree of life. This increasing volume ... completed genome data, and is robust in identifying a rich complement of genetic variation including...
  • PlantTFDB

  • Referenced in 4 articles [sw17023]
  • species and classified them into 58 families. Species included in PlantTFDB 4.0 covers the main ... family. Comprehensive annotations are made for each identified TF, including functional domains, 3D structures, gene ... inferring orthologous groups and constructing phylogenetic trees, evolutionary relationships among identified TFs were inferred...
  • Meta-i6mA

  • Referenced in 0 articles [sw37446]
  • Meta-i6mA: an interspecies predictor for identifying DNA N6-methyladenine sites of plant genomes ... their biological functions. To date, several species-specific machine learning (ML)-based models have been ... model to other species. Hence, their practical application to other plant species is quite limited ... random forest, support vector machine, extremely randomized tree, logistic regression, naïve Bayes and AdaBoost...
  • GAP

  • Referenced in 3221 articles [sw00320]
  • GAP is a system for computational discrete algebra...
  • Magma

  • Referenced in 3363 articles [sw00540]
  • Computer algebra system (CAS). Magma is a large...
  • Maple

  • Referenced in 5403 articles [sw00545]
  • The result of over 30 years of cutting...
  • Mathematica

  • Referenced in 6445 articles [sw00554]
  • Almost any workflow involves computing results, and that...
  • Matlab

  • Referenced in 13702 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • mclust

  • Referenced in 315 articles [sw00563]
  • R package mclust: Normal Mixture Modeling for Model...
  • R

  • Referenced in 10196 articles [sw00771]
  • R is a language and environment for statistical...
  • SageMath

  • Referenced in 2033 articles [sw00825]
  • Sage (SageMath) is free, open-source math software...
  • SINGULAR

  • Referenced in 1522 articles [sw00866]
  • SINGULAR is a Computer Algebra system (CAS) for...
  • SUNDIALS

  • Referenced in 246 articles [sw00927]
  • SUNDIALS was implemented with the goal of providing...
  • GLIM

  • Referenced in 199 articles [sw01126]
  • GLIM - a system for interactive fitting of generalized...