Showing 16 of total 16 results (show query)
ms609
Quartet:Comparison of Phylogenetic Trees Using Quartet and Split Measures
Calculates the number of four-taxon subtrees consistent with a pair of cladograms, calculating the symmetric quartet distance of Bandelt & Dress (1986), Reconstructing the shape of a tree from observed dissimilarity data, Advances in Applied Mathematics, 7, 309-343 <doi:10.1016/0196-8858(86)90038-2>, and using the tqDist algorithm of Sand et al. (2014), tqDist: a library for computing the quartet and triplet distances between binary or general trees, Bioinformatics, 30, 2079–2080 <doi:10.1093/bioinformatics/btu157> for pairs of binary trees.
Maintained by Martin R. Smith. Last updated 2 months ago.
bioinformaticscomparisonphylogenetic-treesphylogeneticsquartetquartet-distanceresearch-tooltreecpp
104.0 match 14 stars 8.00 score 40 scripts
r-causal
quartets:Datasets to Help Teach Statistics
In the spirit of Anscombe's quartet, this package includes datasets that demonstrate the importance of visualizing your data, the importance of not relying on statistical summary measures alone, and why additional assumptions about the data generating mechanism are needed when estimating causal effects. The package includes "Anscombe's Quartet" (Anscombe 1973) <doi:10.1080/00031305.1973.10478966>, D'Agostino McGowan & Barrett (2023) "Causal Quartet" <doi:10.1080/26939169.2023.2276446>, "Datasaurus Dozen" (Matejka & Fitzmaurice 2017), "Interaction Triptych" (Rohrer & Arslan 2021) <doi:10.1177/25152459211007368>, "Rashomon Quartet" (Biecek et al. 2023) <doi:10.48550/arXiv.2302.13356>, and Gelman "Variation and Heterogeneity Causal Quartets" (Gelman et al. 2023) <doi:10.48550/arXiv.2302.12878>.
Maintained by Lucy DAgostino McGowan. Last updated 1 years ago.
99.9 match 42 stars 5.75 score 27 scripts
paulnorthrop
anscombiser:Create Datasets with Identical Summary Statistics
Anscombe's quartet are a set of four two-variable datasets that have several common summary statistics but which have very different joint distributions. This becomes apparent when the data are plotted, which illustrates the importance of using graphical displays in Statistics. This package enables the creation of datasets that have identical marginal sample means and sample variances, sample correlation, least squares regression coefficients and coefficient of determination. The user supplies an initial dataset, which is shifted, scaled and rotated in order to achieve target summary statistics. The general shape of the initial dataset is retained. The target statistics can be supplied directly or calculated based on a user-supplied dataset. The 'datasauRus' package <https://cran.r-project.org/package=datasauRus> provides further examples of datasets that have markedly different scatter plots but share many sample summary statistics.
Maintained by Paul J. Northrop. Last updated 2 years ago.
anscombeanscombes-quartetanscombesquartet
21.3 match 11 stars 4.74 score 9 scripts
lamho86
phylolm:Phylogenetic Linear Regression
Provides functions for fitting phylogenetic linear models and phylogenetic generalized linear models. The computation uses an algorithm that is linear in the number of tips in the tree. The package also provides functions for simulating continuous or binary traits along the tree. Other tools include functions to test the adequacy of a population tree.
Maintained by Lam Si Tung Ho. Last updated 4 months ago.
6.9 match 33 stars 10.79 score 318 scripts 14 dependents
bioc
ITALICS:ITALICS
A Method to normalize of Affymetrix GeneChip Human Mapping 100K and 500K set
Maintained by Guillem Rigaill. Last updated 5 months ago.
10.2 match 4.08 score
kenaho1
asbio:A Collection of Statistical Tools for Biologists
Contains functions from: Aho, K. (2014) Foundational and Applied Statistics for Biologists using R. CRC/Taylor and Francis, Boca Raton, FL, ISBN: 978-1-4398-7338-0.
Maintained by Ken Aho. Last updated 2 months ago.
4.5 match 5 stars 7.32 score 310 scripts 3 dependents
svmiller
stevedata:Steve's Toy Data for Teaching About a Variety of Methodological, Social, and Political Topics
This is a collection of various kinds of data with broad uses for teaching. My students, and academics like me who teach the same topics I teach, should find this useful if their teaching workflow is also built around the R programming language. The applications are multiple but mostly cluster on topics of statistical methodology, international relations, and political economy.
Maintained by Steve Miller. Last updated 3 days ago.
4.0 match 8 stars 5.97 score 178 scripts
stephenturner
Tmisc:Turner Miscellaneous
Miscellaneous utility functions for data manipulation, data tidying, and working with gene expression data and biological sequence data.
Maintained by Stephen Turner. Last updated 11 months ago.
3.8 match 2 stars 5.44 score 174 scripts 1 dependents
ovgu-sh
desk:Didactic Econometrics Starter Kit
Written to help undergraduate as well as graduate students to get started with R for basic econometrics without the need to import specific functions and datasets from many different sources. Primarily, the package is meant to accompany the German textbook Auer, L.v., Hoffmann, S., Kranz, T. (2024, ISBN: 978-3-662-68263-0) from which the exercises cover all the topics from the textbook Auer, L.v. (2023, ISBN: 978-3-658-42699-6).
Maintained by Soenke Hoffmann. Last updated 11 months ago.
4.5 match 4.30 score 10 scripts
hneth
ds4psy:Data Science for Psychologists
All datasets and functions required for the examples and exercises of the book "Data Science for Psychologists" (by Hansjoerg Neth, Konstanz University, 2023), freely available at <https://bookdown.org/hneth/ds4psy/>. The book and course introduce principles and methods of data science to students of psychology and other biological or social sciences. The 'ds4psy' package primarily provides datasets, but also functions for data generation and manipulation (e.g., of text and time data) and graphics that are used in the book and its exercises. All functions included in 'ds4psy' are designed to be explicit and instructive, rather than efficient or elegant.
Maintained by Hansjoerg Neth. Last updated 1 months ago.
data-literacydata-scienceeducationexploratory-data-analysispsychologysocial-sciencesvisualisation
1.7 match 22 stars 6.79 score 70 scriptsms609
CongreveLamsdell2016:Distance Metrics for Trees Generated by Congreve and Lamsdell
Includes the 100 datasets simulated by Congreve and Lamsdell (2016) <doi:10.1111/pala.12236>, and analyses of the partition and quartet distance of reconstructed trees from the generative tree, as analysed by Smith (2019) <doi:10.1098/rsbl.2018.0632>.
Maintained by Martin R. Smith. Last updated 1 years ago.
2.3 match 4.48 score 1 scripts
mhenderson
funcgeo:Functional Geometry in R
Peter Henderson's Functional Geometry in R.
Maintained by Matthew Henderson. Last updated 12 months ago.
functional-programminggeometrygraphics
3.3 match 8 stars 3.08 score 3 scripts
jmcurran
dafs:Data Analysis for Forensic Scientists
Data and miscellanea to support the book "Introduction to Data analysis with R for Forensic Scientists." This book was written by James Curran and published by CRC Press in 2010 (ISBN: 978-1-4200-8826-7).
Maintained by James Curran. Last updated 3 years ago.
4.5 match 1 stars 1.08 score 12 scripts
cseljatib
datana:Datasets and Functions to Accompany Analisis De Datos Con R
Datasets and functions to accompany the book 'Analisis de datos con el programa estadistico R: una introduccion aplicada' by Salas-Eljatib (2021, ISBN: 9789566086109). The package helps carry out data management, exploratory analyses, and model fitting.
Maintained by Christian Salas-Eljatib. Last updated 6 months ago.
3.5 match 1.30 score 1 scripts
