Showing 26 of total 26 results (show query)
abarbour
psd:Adaptive, Sine-Multitaper Power Spectral Density and Cross Spectrum Estimation
Produces power spectral density estimates through iterative refinement of the optimal number of sine-tapers at each frequency. This optimization procedure is based on the method of Riedel and Sidorenko (1995), which minimizes the Mean Square Error (sum of variance and bias) at each frequency, but modified for computational stability. The same procedure can now be used to calculate the cross spectrum (multivariate analyses).
Maintained by Andrew J. Barbour. Last updated 2 years ago.
multitaperpower-spectral-densitypower-spectrumpsdspectral-density-estimatesspectrumopenblascpp
73.5 match 9 stars 7.12 score 122 scripts 1 dependents
fishr-core-team
FSA:Simple Fisheries Stock Assessment Methods
A variety of simple fish stock assessment methods.
Maintained by Derek H. Ogle. Last updated 2 months ago.
fishfisheriesfisheries-managementfisheries-stock-assessmentpopulation-dynamicsstock-assessment
8.9 match 68 stars 11.08 score 1.7k scripts 6 dependents
stscl
gdverse:Analysis of Spatial Stratified Heterogeneity
Analyzing spatial factors and exploring spatial associations based on the concept of spatial stratified heterogeneity, while also taking into account local spatial dependencies, spatial interpretability, complex spatial interactions, and robust spatial stratification. Additionally, it supports the spatial stratified heterogeneity family established in academic literature.
Maintained by Wenbo Lv. Last updated 5 days ago.
geographical-detectorgeoinformaticsgeospatial-analysisspatial-statisticsspatial-stratified-heterogeneitycpp
6.5 match 32 stars 9.07 score 41 scripts 2 dependents
storeylab
bnpsd:Simulate Genotypes from the BN-PSD Admixture Model
The Pritchard-Stephens-Donnelly (PSD) admixture model has k intermediate subpopulations from which n individuals draw their alleles dictated by their individual-specific admixture proportions. The BN-PSD model additionally imposes the Balding-Nichols (BN) allele frequency model to the intermediate populations, which therefore evolved independently from a common ancestral population T with subpopulation-specific FST (Wright's fixation index) parameters. The BN-PSD model can be used to yield complex population structures. This simulation approach is now extended to subpopulations related by a tree. Method described in Ochoa and Storey (2021) <doi:10.1371/journal.pgen.1009241>.
Maintained by Alejandro Ochoa. Last updated 2 years ago.
8.4 match 8 stars 5.42 score 33 scripts
bioc
gcatest:Genotype Conditional Association TEST
GCAT is an association test for genome wide association studies that controls for population structure under a general class of trait models. This test conditions on the trait, which makes it immune to confounding by unmodeled environmental factors. Population structure is modeled via logistic factors, which are estimated using the `lfa` package.
Maintained by Alejandro Ochoa. Last updated 5 months ago.
snpdimensionreductionprincipalcomponentgenomewideassociation
7.5 match 5 stars 5.18 score 4 scripts
skembel
picante:Integrating Phylogenies and Ecology
Functions for phylocom integration, community analyses, null-models, traits and evolution. Implements numerous ecophylogenetic approaches including measures of community phylogenetic and trait diversity, phylogenetic signal, estimation of trait values for unobserved taxa, null models for community and phylogeny randomizations, and utility functions for data input/output and phylogeny plotting. A full description of package functionality and methods are provided by Kembel et al. (2010) <doi:10.1093/bioinformatics/btq166>.
Maintained by Steven W. Kembel. Last updated 2 years ago.
3.3 match 34 stars 11.42 score 1.1k scripts 16 dependents
gjmvanboxtel
gsignal:Signal Processing
R implementation of the 'Octave' package 'signal', containing a variety of signal processing tools, such as signal generation and measurement, correlation and convolution, filtering, filter design, filter analysis and conversion, power spectrum analysis, system identification, decimation and sample rate change, and windowing.
Maintained by Geert van Boxtel. Last updated 2 months ago.
3.5 match 24 stars 10.03 score 133 scripts 34 dependents
usaid-oha-si
gophr:Utility functions related to working with the MER Structured Dataset
This packages contains a number of functions for working with the PEPFAR MSD.
Maintained by Aaron Chafetz. Last updated 4 months ago.
4.8 match 1 stars 6.21 score 182 scripts 1 dependents
daijiang
phyr:Model Based Phylogenetic Analysis
A collection of functions to do model-based phylogenetic analysis. It includes functions to calculate community phylogenetic diversity, to estimate correlations among functional traits while accounting for phylogenetic relationships, and to fit phylogenetic generalized linear mixed models. The Bayesian phylogenetic generalized linear mixed models are fitted with the 'INLA' package (<https://www.r-inla.org>).
Maintained by Daijiang Li. Last updated 1 years ago.
bayesianglmminlaphylogenyspecies-distribution-modelingopenblascpp
3.3 match 31 stars 8.71 score 107 scripts 2 dependents
radiant-rstats
radiant.data:Data Menu for Radiant: Business Analytics using R and Shiny
The Radiant Data menu includes interfaces for loading, saving, viewing, visualizing, summarizing, transforming, and combining data. It also contains functionality to generate reproducible reports of the analyses conducted in the application.
Maintained by Vincent Nijs. Last updated 5 months ago.
3.3 match 54 stars 8.30 score 146 scripts 6 dependents
mbeauvai
AFM:Atomic Force Microscope Image Analysis
Provides Atomic Force Microscope images analysis such as Gaussian mixes identification, Power Spectral Density, roughness against lengthscale, experimental variogram and variogram models, fractal dimension and scale, 2D network analysis. The AFM images can be exported to STL format for 3D printing.
Maintained by Mathieu Beauvais. Last updated 4 years ago.
8.7 match 1 stars 2.96 score 92 scripts
egenn
rtemis:Machine Learning and Visualization
Advanced Machine Learning and Visualization. Unsupervised Learning (Clustering, Decomposition), Supervised Learning (Classification, Regression), Cross-Decomposition, Bagging, Boosting, Meta-models. Static and interactive graphics.
Maintained by E.D. Gennatas. Last updated 1 months ago.
data-sciencedata-visualizationmachine-learningmachine-learning-libraryvisualization
3.3 match 145 stars 7.09 score 50 scripts 2 dependents
cvxgrp
CVXR:Disciplined Convex Optimization
An object-oriented modeling language for disciplined convex programming (DCP) as described in Fu, Narasimhan, and Boyd (2020, <doi:10.18637/jss.v094.i14>). It allows the user to formulate convex optimization problems in a natural way following mathematical convention and DCP rules. The system analyzes the problem, verifies its convexity, converts it into a canonical form, and hands it off to an appropriate solver to obtain the solution. Interfaces to solvers on CRAN and elsewhere are provided, both commercial and open source.
Maintained by Anqi Fu. Last updated 4 months ago.
1.8 match 207 stars 12.89 score 768 scripts 51 dependents
europeanifcbgroup
iRfcb:Tools for Managing Imaging FlowCytobot (IFCB) Data
A comprehensive suite of tools for managing, processing, and analyzing data from the IFCB. I R FlowCytobot ('iRfcb') supports quality control, geospatial analysis, and preparation of IFCB data for publication in databases like <https://www.gbif.org>, <https://www.obis.org>, <https://emodnet.ec.europa.eu/en>, <https://shark.smhi.se/>, and <https://www.ecotaxa.org>. The package integrates with the MATLAB 'ifcb-analysis' tool, which is described in Sosik and Olson (2007) <doi:10.4319/lom.2007.5.204>, and provides features for working with raw, manually classified, and machine learning–classified image datasets. Key functionalities include image extraction, particle size distribution analysis, taxonomic data handling, and biomass concentration calculations, essential for plankton research.
Maintained by Anders Torstensson. Last updated 3 days ago.
3.6 match 1 stars 5.72 score
arsilva87
soilphysics:Soil Physical Analysis
Basic and model-based soil physical analyses.
Maintained by Anderson Rodrigo da Silva. Last updated 3 years ago.
3.3 match 11 stars 4.83 score 12 scripts
r-forge
RHRV:Heart Rate Variability Analysis of ECG Data
Allows users to import data files containing heartbeat positions in the most broadly used formats, to remove outliers or points with unacceptable physiological values present in the time series, to plot HRV data, and to perform time domain, frequency domain and nonlinear HRV analysis. See Garcia et al. (2017) <DOI:10.1007/978-3-319-65355-6>.
Maintained by Leandro Rodriguez-Linares. Last updated 6 months ago.
1.8 match 6.79 score 63 scripts 1 dependents
martinzaefferer
CEGO:Combinatorial Efficient Global Optimization
Model building, surrogate model based optimization and Efficient Global Optimization in combinatorial or mixed search spaces.
Maintained by Martin Zaefferer. Last updated 2 months ago.
3.0 match 1 stars 3.04 score 73 scripts
dongxinzheng
RespirAnalyzer:Analysis Functions of Respiratory Data
Provides functions for the complete analysis of respiratory data. Consists of a set of functions that allow to preprocessing respiratory data, calculate both regular statistics and nonlinear statistics, conduct group comparison and visualize the results. Especially, Power Spectral Density ('PSD') (A. Eke (2000) <doi:10.1007/s004249900135>), 'MultiScale Entropy(MSE)' ('Madalena Costa(2002)' <doi:10.1103/PhysRevLett.89.068102>) and 'MultiFractal Detrended Fluctuation Analysis(MFDFA)' ('Jan W.Kantelhardt' (2002) <doi:10.1016/S0378-4371(02)01383-3>) were applied for the analysis of respiratory data.
Maintained by Xinzheng Dong. Last updated 1 years ago.
2.3 match 2.70 score
gillian-earthscope
IRISSeismic:Classes and Methods for Seismic Data Analysis
Provides classes and methods for seismic data analysis. The base classes and methods are inspired by the python code found in the 'ObsPy' python toolbox <https://github.com/obspy/obspy>. Additional classes and methods support data returned by web services provided by EarthScope. <https://service.earthscope.org/>.
Maintained by Gillian Sharer. Last updated 3 months ago.
1.8 match 3.18 score 50 scripts 1 dependents
handcock
degreenet:Models for Skewed Count Distributions Relevant to Networks
Likelihood-based inference for skewed count distributions, typically of degrees used in network modeling. "degreenet" is a part of the "statnet" suite of packages for network analysis. See Jones and Handcock <doi:10.1098/rspb.2003.2369>.
Maintained by Mark S. Handcock. Last updated 6 months ago.
3.0 match 1 stars 1.75 score 28 scripts
mcthedwards
bsplinePsd:Bayesian Nonparametric Spectral Density Estimation Using B-Spline Priors
Implementation of a Metropolis-within-Gibbs MCMC algorithm to flexibly estimate the spectral density of a stationary time series. The algorithm updates a nonparametric B-spline prior using the Whittle likelihood to produce pseudo-posterior samples and is based on the work presented in Edwards, M.C., Meyer, R. and Christensen, N., Statistics and Computing (2018). <doi.org/10.1007/s11222-017-9796-9>.
Maintained by Matthew C. Edwards. Last updated 6 years ago.
1.9 match 1 stars 2.70 score 3 scripts
cran
beyondWhittle:Bayesian Spectral Inference for Time Series
Implementations of Bayesian parametric, nonparametric and semiparametric procedures for univariate and multivariate time series. The package is based on the methods presented in C. Kirch et al (2018) <doi:10.1214/18-BA1126>, A. Meier (2018) <https://opendata.uni-halle.de//handle/1981185920/13470> and Y. Tang et al (2023) <doi:10.48550/arXiv.2303.11561>. It was supported by DFG grants KI 1443/3-1 and KI 1443/3-2.
Maintained by Renate Meyer. Last updated 4 months ago.
1.7 match 2 stars 1.68 score 12 scripts
seil85
spectral:Common Methods of Spectral Data Analysis
On discrete data spectral analysis is performed by Fourier and Hilbert transforms as well as with model based analysis called Lomb-Scargle method. Fragmented and irregularly spaced data can be processed in almost all methods. Both, FFT as well as LOMB methods take multivariate data and return standardized PSD. For didactic reasons an analytical approach for deconvolution of noise spectra and sampling function is provided. A user friendly interface helps to interpret the results.
Maintained by Martin Seilmayer. Last updated 4 years ago.
0.5 match 2.81 score 36 scripts 1 dependents