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r-rdsg
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public |
A set of handy functions for Notre Dame Data Science Group
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2025-03-25 |
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mrbayes
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public |
Bayesian Inference of Phylogeny
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2025-03-25 |
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qqman
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public |
Draws Manhattan plot and QQ plot using plink assoc output.
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2025-03-25 |
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r-tda
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public |
Tools for the statistical analysis of persistent homology and for density clustering. For that, this package provides an R interface for the efficient algorithms of the C++ libraries 'GUDHI' <http://gudhi.gforge.inria.fr/>, 'Dionysus' <http://www.mrzv.org/software/dionysus/>, and 'PHAT' <https://bitbucket.org/phat-code/phat/>. This package also implements the methods in Fasy et al. (2014) <doi:10.1214/14-AOS1252> and Chazal et al. (2014) <doi:10.1145/2582112.2582128> for analyzing the statistical significance of persistent homology features.
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2025-03-25 |
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nbresuse
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public |
Simple Jupyter extension to show how much resources (RAM) your notebook is using
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2025-03-25 |
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r-pma
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public |
Performs Penalized Multivariate Analysis: a penalized matrix decomposition, sparse principal components analysis, and sparse canonical correlation analysis, described in the following papers: (1) Witten, Tibshirani and Hastie (2009) A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis. Biostatistics 10(3):515-534. (2) Witten and Tibshirani (2009) Extensions of sparse canonical correlation analysis, with applications to genomic data. Statistical Applications in Genetics and Molecular Biology 8(1): Article 28.
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2025-03-25 |
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r-rafalib
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public |
A series of shortcuts for routine tasks originally developed by Rafael A. Irizarry to facilitate data exploration.
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2025-03-25 |
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r-cloudml
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Interface to the Google Cloud Machine Learning Platform <https://cloud.google.com/ml-engine>, which provides cloud tools for training machine learning models.
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2025-03-25 |
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hg-git
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public |
Push and pull from git repositories using mercurial.
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2025-03-25 |
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r-hawkes
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The package allows to simulate Hawkes process both in univariate and multivariate settings. It gives functions to compute different moments of the number of jumps of the process on a given interval, such as mean, variance or autocorrelation of process jumps on time intervals separated by a lag.
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2025-03-25 |
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jupyterlab-slurm
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public |
No Summary
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2025-03-25 |
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jupyterlab-latex
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public |
No Summary
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2025-03-25 |
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jupyterlab_katex-extension
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public |
No Summary
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2025-03-25 |
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jupyterlab-flake8
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public |
No Summary
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2025-03-25 |
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jupyterlab-git
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public |
No Summary
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2025-03-25 |
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jupyterlab_geojson-extension
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public |
No Summary
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2025-03-25 |
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jupyterlab-github
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public |
No Summary
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2025-03-25 |
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jupyterlab_fasta-extension
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public |
No Summary
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2025-03-25 |
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jupyterlab-toc
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public |
No Summary
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2025-03-25 |
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jupyterlab-vim
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public |
No Summary
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2025-03-25 |
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jupyterlab-variableinspector
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public |
No Summary
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2025-03-25 |
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jupyterlab-hub
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public |
No Summary
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2025-03-25 |
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jupyterlab_html
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public |
No Summary
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2025-03-25 |
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jupyterlab-google-drive
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public |
No Summary
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2025-03-25 |
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jupyterlab_bokeh
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public |
No Summary
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2025-03-25 |
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ijavascript
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public |
No Summary
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2025-03-25 |
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poyo
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public |
A lightweight YAML Parser for Python
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2025-03-25 |
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whichcraft
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public |
This package provides cross-platform cross-python shutil.which functionality.
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2025-03-25 |
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binaryornot
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public |
Ultra-lightweight pure Python package to check if a file is binary or text.
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2025-03-25 |
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r-here
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public |
Constructs paths to your project's files. The 'here()' function uses a reasonable heuristics to find your project's files, based on the current working directory at the time when the package is loaded. Use it as a drop-in replacement for 'file.path()', it will always locate the files relative to your project root.
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2025-03-25 |
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r-sl3
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Implements the super learner prediction method and contains a library of prediction algorithms to be used in the super learner.
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2025-03-25 |
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r-h2o
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public |
R scripting functionality for 'H2O', the open source math engine for big data that computes parallel distributed machine learning algorithms such as generalized linear models, gradient boosting machines, random forests, and neural networks (deep learning) within various cluster environments.
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2025-03-25 |
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r-tsdyn
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public |
Implements nonlinear autoregressive (AR) time series models. For univariate series, a non-parametric approach is available through additive nonlinear AR. Parametric modeling and testing for regime switching dynamics is available when the transition is either direct (TAR: threshold AR) or smooth (STAR: smooth transition AR, LSTAR). For multivariate series, one can estimate a range of TVAR or threshold cointegration TVECM models with two or three regimes. Tests can be conducted for TVAR as well as for TVECM (Hansen and Seo 2002 and Seo 2006).
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2025-03-25 |
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r-tserieschaos
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public |
Routines for the analysis of nonlinear time series. This work is largely inspired by the TISEAN project, by Rainer Hegger, Holger Kantz and Thomas Schreiber: http://www.mpipks-dresden.mpg.de/~tisean/
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2025-03-25 |
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r-desolve
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Functions that solve initial value problems of a system of first-order ordinary differential equations ('ODE'), of partial differential equations ('PDE'), of differential algebraic equations ('DAE'), and of delay differential equations. The functions provide an interface to the FORTRAN functions 'lsoda', 'lsodar', 'lsode', 'lsodes' of the 'ODEPACK' collection, to the FORTRAN functions 'dvode', 'zvode' and 'daspk' and a C-implementation of solvers of the 'Runge-Kutta' family with fixed or variable time steps. The package contains routines designed for solving 'ODEs' resulting from 1-D, 2-D and 3-D partial differential equations ('PDE') that have been converted to 'ODEs' by numerical differencing.
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2025-03-25 |
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r-rugarch
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public |
ARFIMA, in-mean, external regressors and various GARCH flavors, with methods for fit, forecast, simulation, inference and plotting.
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2025-03-25 |
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r-ks
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public |
Kernel smoothers for univariate and multivariate data, including densities, density derivatives, cumulative distributions, clustering, classification, density ridges, significant modal regions, and two-sample hypothesis tests. Duong (2017) <doi:10.18637/jss.v021.i07>.
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2025-03-25 |
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r-fnn
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public |
Cover-tree and kd-tree fast k-nearest neighbor search algorithms and related applications including KNN classification, regression and information measures are implemented.
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2025-03-25 |
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r-mclust
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public |
Gaussian finite mixture models fitted via EM algorithm for model-based clustering, classification, and density estimation, including Bayesian regularization, dimension reduction for visualisation, and resampling-based inference.
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2025-03-25 |
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r-multicool
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A set of tools to permute multisets without loops or hash tables and to generate integer partitions. The permutation functions are based on C code from Aaron Williams. Cool-lex order is similar to colexicographical order. The algorithm is described in Williams, A. (2009) <DOI:10.1145/1496770.1496877> Loopless Generation of Multiset Permutations by Prefix Shifts. Symposium on Discrete Algorithms, New York, United States. The permutation code is distributed without restrictions. The code for stable and efficient computation of multinomial coefficients comes from Dave Barber. The code can be download from <http://tamivox.org/dave/multinomial/code.html> and is distributed without conditions. The package also generates the integer partitions of a positive, non-zero integer n. The C++ code for this is based on Python code from Jerome Kelleher which can be found here <http://jeromekelleher.net/tag/integer-partitions.html>. The C++ code and Python code are distributed without conditions.
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2025-03-25 |
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r-spd
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public |
The Semi Parametric Piecewise Distribution blends the Generalized Pareto Distribution for the tails with a kernel based interior.
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2025-03-25 |
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r-expm
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public |
Computation of the matrix exponential, logarithm, sqrt, and related quantities.
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2025-03-25 |
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r-skewhyperbolic
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Functions are provided for the density function, distribution function, quantiles and random number generation for the skew hyperbolic t-distribution. There are also functions that fit the distribution to data. There are functions for the mean, variance, skewness, kurtosis and mode of a given distribution and to calculate moments of any order about any centre. To assess goodness of fit, there are functions to generate a Q-Q plot, a P-P plot and a tail plot.
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2025-03-25 |
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r-generalizedhyperbolic
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This package provides functions for the hyperbolic and related distributions. Density, distribution and quantile functions and random number generation are provided for the hyperbolic distribution, the generalized hyperbolic distribution, the generalized inverse Gaussian distribution and the skew-Laplace distribution. Additional functionality is provided for the hyperbolic distribution, normal inverse Gaussian distribution and generalized inverse Gaussian distribution, including fitting of these distributions to data. Linear models with hyperbolic errors may be fitted using hyperblmFit.
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2025-03-25 |
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r-distributionutils
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This package contains utilities which are of use in the packages I have developed for dealing with distributions. Currently these packages are GeneralizedHyperbolic, VarianceGamma, and SkewHyperbolic and NormalLaplace. Each of these packages requires DistributionUtils. Functionality includes sample skewness and kurtosis, log-histogram, tail plots, moments by integration, changing the point about which a moment is calculated, functions for testing distributions using inversion tests and the Massart inequality. Also includes an implementation of the incomplete Bessel K function.
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2025-03-25 |
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r-runit
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R functions implementing a standard Unit Testing framework, with additional code inspection and report generation tools.
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2025-03-25 |
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r-rsolnp
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public |
General Non-linear Optimization Using Augmented Lagrange Multiplier Method.
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2025-03-25 |
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r-truncnorm
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public |
Density, probability, quantile and random number generation functions for the truncated normal distribution.
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2025-03-25 |
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r-drat
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public |
Creation and use of R Repositories via helper functions to insert packages into a repository, and to add repository information to the current R session. Two primary types of repositories are support: gh-pages at GitHub, as well as local repositories on either the same machine or a local network. Drat is a recursive acronym: Drat R Archive Template.
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2025-03-25 |
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r-origami
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Provides a general framework for the application of cross-validation schemes to particular functions. By allowing arbitrary lists of results, origami accommodates a range of cross-validation applications.
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2025-03-25 |
