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liamrevell

phytools:Phylogenetic Tools for Comparative Biology (and Other Things)

A wide range of methods for phylogenetic analysis - concentrated in phylogenetic comparative biology, but also including numerous techniques for visualizing, analyzing, manipulating, reading or writing, and even inferring phylogenetic trees. Included among the functions in phylogenetic comparative biology are various for ancestral state reconstruction, model-fitting, and simulation of phylogenies and trait data. A broad range of plotting methods for phylogenies and comparative data include (but are not restricted to) methods for mapping trait evolution on trees, for projecting trees into phenotype space or a onto a geographic map, and for visualizing correlated speciation between trees. Lastly, numerous functions are designed for reading, writing, analyzing, inferring, simulating, and manipulating phylogenetic trees and comparative data. For instance, there are functions for computing consensus phylogenies from a set, for simulating phylogenetic trees and data under a range of models, for randomly or non-randomly attaching species or clades to a tree, as well as for a wide range of other manipulations and analyses that phylogenetic biologists might find useful in their research.

Maintained by Liam J. Revell. Last updated 1 months ago.

220 stars 13.84 score 4.8k scripts 77 dependents

tagteam

prodlim:Product-Limit Estimation for Censored Event History Analysis

Fast and user friendly implementation of nonparametric estimators for censored event history (survival) analysis. Kaplan-Meier and Aalen-Johansen method.

Maintained by Thomas A. Gerds. Last updated 26 days ago.

7 stars 12.18 score 1000 scripts 462 dependents

bioc

CNORode:ODE add-on to CellNOptR

Logic based ordinary differential equation (ODE) add-on to CellNOptR.

Maintained by Attila Gabor. Last updated 5 months ago.

immunooncologycellbasedassayscellbiologyproteomicsbioinformaticstimecourse

5.74 score 37 scripts 1 dependents

henrikbengtsson

aroma.core:Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework

Core methods and classes used by higher-level 'aroma.*' packages part of the Aroma Project, e.g. 'aroma.affymetrix' and 'aroma.cn'.

Maintained by Henrik Bengtsson. Last updated 2 years ago.

microarrayonechanneltwochannelmultichanneldataimportdatarepresentationguivisualizationpreprocessingqualitycontrolacghcopynumbervariants

1 stars 4.30 score 16 scripts 6 dependents

cran

SMITIDstruct:Data Structure and Manipulations Tool for Host and Viral Population

Statistical Methods for Inferring Transmissions of Infectious Diseases from deep sequencing data (SMITID). It allow sequence-space-time host and viral population data storage, indexation and querying.

Maintained by Jean-Francois Rey. Last updated 6 years ago.

1.00 score

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