Showing 78 of total 78 results (show query)
wahani
dat:Tools for Data Manipulation
An implementation of common higher order functions with syntactic sugar for anonymous function. Provides also a link to 'dplyr' and 'data.table' for common transformations on data frames to work around non standard evaluation by default.
Maintained by Sebastian Warnholz. Last updated 4 years ago.
55.0 match 16 stars 6.66 score 32 scripts 1 dependents
iandryden
shapes:Statistical Shape Analysis
Routines for the statistical analysis of landmark shapes, including Procrustes analysis, graphical displays, principal components analysis, permutation and bootstrap tests, thin-plate spline transformation grids and comparing covariance matrices. See Dryden, I.L. and Mardia, K.V. (2016). Statistical shape analysis, with Applications in R (2nd Edition), John Wiley and Sons.
Maintained by Ian Dryden. Last updated 4 months ago.
40.5 match 7 stars 8.50 score 225 scripts 24 dependents
scharlton2
phreeqc:R Interface to Geochemical Modeling Software
A geochemical modeling program developed by the US Geological Survey that is designed to perform a wide variety of aqueous geochemical calculations, including speciation, batch-reaction, one-dimensional reactive-transport, and inverse geochemical calculations.
Maintained by S.R. Charlton. Last updated 18 days ago.
59.8 match 9 stars 3.37 score 60 scripts
libscie
datr:'Dat' Protocol Interface
Interface with the 'Dat' p2p network protocol <https://datproject.org>. Clone archives from the network, share your own files, and install packages from the network.
Maintained by Chris Hartgerink. Last updated 4 years ago.
36.3 match 51 stars 4.41 score 10 scripts
jacobkap
asciiSetupReader:Reads Fixed-Width ASCII Data Files (.txt or .dat) that Have Accompanying Setup Files (.sps or .sas)
Lets you open a fixed-width ASCII file (.txt or .dat) that has an accompanying setup file (.sps or .sas). These file combinations are sometimes referred to as .txt+.sps, .txt+.sas, .dat+.sps, or .dat+.sas. This will only run in a txt-sps or txt-sas pair in which the setup file contains instructions to open that text file. It will NOT open other text files, .sav, .sas, or .por data files. Fixed-width ASCII files with setup files are common in older (pre-2000) government data.
Maintained by Jacob Kaplan. Last updated 7 months ago.
asciidatdata-readerfixed-widthfixed-width-parserfixed-width-tablesfixed-width-textsasspss
14.6 match 11 stars 6.34 score 22 scripts 1 dependents
tidymodels
parsnip:A Common API to Modeling and Analysis Functions
A common interface is provided to allow users to specify a model without having to remember the different argument names across different functions or computational engines (e.g. 'R', 'Spark', 'Stan', 'H2O', etc).
Maintained by Max Kuhn. Last updated 4 days ago.
3.0 match 612 stars 16.37 score 3.4k scripts 69 dependents
alphaprime7
normfluodbf:Cleans and Normalizes FLUOstar DBF and DAT Files from 'Liposome' Flux Assays
Cleans and Normalizes FLUOstar DBF and DAT Files obtained from liposome flux assays. Users should verify extended usage of the package on files from other assay types.
Maintained by Tingwei Adeck. Last updated 4 months ago.
8.7 match 1 stars 4.98 score 12 scripts
remkoduursma
Maeswrap:Wrapper functions for MAESTRA/MAESPA
A bundle of functions for modifying MAESTRA/MAESPA input files, reading output files, and visualizing the stand in 3D. Handy for running sensitivity analyses, scenario analyses, etc.
Maintained by Remko Duursma. Last updated 5 years ago.
10.5 match 3 stars 3.92 score 28 scripts
mrcieu
TwoSampleMR:Two Sample MR Functions and Interface to MRC Integrative Epidemiology Unit OpenGWAS Database
A package for performing Mendelian randomization using GWAS summary data. It uses the IEU OpenGWAS database <https://gwas.mrcieu.ac.uk/> to automatically obtain data, and a wide range of methods to run the analysis.
Maintained by Gibran Hemani. Last updated 10 days ago.
3.6 match 467 stars 11.23 score 1.7k scripts 1 dependents
mplex
multiplex:Algebraic Tools for the Analysis of Multiple Social Networks
Algebraic procedures for analyses of multiple social networks are delivered with this package as described in Ostoic (2020) <DOI:10.18637/jss.v092.i11>. 'multiplex' makes possible, among other things, to create and manipulate multiplex, multimode, and multilevel network data with different formats. Effective ways are available to treat multiple networks with routines that combine algebraic systems like the partially ordered semigroup with decomposition procedures or semiring structures with the relational bundles occurring in different types of multivariate networks. 'multiplex' provides also an algebraic approach for affiliation networks through Galois derivations between families of the pairs of subsets in the two domains of the network with visualization options.
Maintained by Antonio Rivero Ostoic. Last updated 2 months ago.
algebranetwork-analysissemigroupsemiring
4.3 match 23 stars 8.12 score 69 scripts 2 dependents
glotaran
TIMP:Fitting Separable Nonlinear Models in Spectroscopy and Microscopy
A problem solving environment (PSE) for fitting separable nonlinear models to measurements arising in physics and chemistry experiments, as described by Mullen & van Stokkum (2007) <doi:10.18637/jss.v018.i03> for its use in fitting time resolved spectroscopy data, and as described by Laptenok et al. (2007) <doi:10.18637/jss.v018.i08> for its use in fitting Fluorescence Lifetime Imaging Microscopy (FLIM) data, in the study of Förster Resonance Energy Transfer (FRET). `TIMP` also serves as the computation backend for the `GloTarAn` software, a graphical user interface for the package, as described in Snellenburg et al. (2012) <doi:10.18637/jss.v049.i03>.
Maintained by Joris Snellenburg. Last updated 2 years ago.
6.8 match 3 stars 4.80 score 14 scripts 1 dependents
r-hyperspec
hyperSpec:Work with Hyperspectral Data, i.e. Spectra + Meta Information (Spatial, Time, Concentration, ...)
Comfortable ways to work with hyperspectral data sets, i.e. spatially or time-resolved spectra, or spectra with any other kind of information associated with each of the spectra. The spectra can be data as obtained in XRF, UV/VIS, Fluorescence, AES, NIR, IR, Raman, NMR, MS, etc. More generally, any data that is recorded over a discretized variable, e.g. absorbance = f(wavelength), stored as a vector of absorbance values for discrete wavelengths is suitable.
Maintained by Claudia Beleites. Last updated 10 months ago.
data-wranglinghyperspectralimaginginfrarednmrramanspectroscopyuv-visxrf
4.0 match 16 stars 8.13 score 233 scripts 2 dependents
andyliaw-mrk
locfit:Local Regression, Likelihood and Density Estimation
Local regression, likelihood and density estimation methods as described in the 1999 book by Loader.
Maintained by Andy Liaw. Last updated 11 days ago.
3.3 match 1 stars 9.40 score 428 scripts 606 dependents
youyifong
kyotil:Utility Functions for Statistical Analysis Report Generation and Monte Carlo Studies
Helper functions for creating formatted summary of regression models, writing publication-ready tables to latex files, and running Monte Carlo experiments.
Maintained by Youyi Fong. Last updated 8 days ago.
3.8 match 7.87 score 236 scripts 7 dependents
dfsp-spirit
freesurferformats:Read and Write 'FreeSurfer' Neuroimaging File Formats
Provides functions to read and write neuroimaging data in various file formats, with a focus on 'FreeSurfer' <http://freesurfer.net/> formats. This includes, but is not limited to, the following file formats: 1) MGH/MGZ format files, which can contain multi-dimensional images or other data. Typically they contain time-series of three-dimensional brain scans acquired by magnetic resonance imaging (MRI). They can also contain vertex-wise measures of surface morphometry data. The MGH format is named after the Massachusetts General Hospital, and the MGZ format is a compressed version of the same format. 2) 'FreeSurfer' morphometry data files in binary 'curv' format. These contain vertex-wise surface measures, i.e., one scalar value for each vertex of a brain surface mesh. These are typically values like the cortical thickness or brain surface area at each vertex. 3) Annotation file format. This contains a brain surface parcellation derived from a cortical atlas. 4) Surface file format. Contains a brain surface mesh, given by a list of vertices and a list of faces.
Maintained by Tim Schäfer. Last updated 6 months ago.
brainbrain-atlasbrain-surfacescurvdtifileformatsfreesurferlabelmeshmghmrineuroimagingparcellationresearchsurfacevoxel
3.6 match 23 stars 8.07 score 25 scripts 8 dependents
rammkripa
weed:Wrangler for Emergency Events Database
Makes research involving EMDAT and related datasets easier. These Datasets are manually filled and have several formatting and compatibility issues. Weed aims to resolve these with its functions.
Maintained by Ram Kripa. Last updated 1 years ago.
em-datemergency-events-databaseweed
9.2 match 2 stars 3.00 score 6 scripts
kwb-r
kwb.hydrus1d:R Interface for the Last Official Release of Hydrus1D (V4.17.0140) for Windows
R Interface for the Last Official Release of Hydrus1D (v4.17.0140) for Windows.
Maintained by Michael Rustler. Last updated 2 months ago.
7.9 match 2 stars 3.48 score 1 dependents
dfsp-spirit
fsbrain:Managing and Visualizing Brain Surface Data
Provides high-level access to neuroimaging data from standard software packages like 'FreeSurfer' <http://freesurfer.net/> on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and statistical results directly in 'R'.
Maintained by Tim Schäfer. Last updated 4 months ago.
3dbraindtifreesurfermeshmrineuroimagingresearchsurfacevisualizationvoxel
3.5 match 66 stars 6.47 score 15 scripts
bioc
NOISeq:Exploratory analysis and differential expression for RNA-seq data
Analysis of RNA-seq expression data or other similar kind of data. Exploratory plots to evualuate saturation, count distribution, expression per chromosome, type of detected features, features length, etc. Differential expression between two experimental conditions with no parametric assumptions.
Maintained by Sonia Tarazona. Last updated 5 months ago.
immunooncologyrnaseqdifferentialexpressionvisualizationsequencing
3.3 match 6.70 score 207 scripts 4 dependents
ghwang-nk
cpss:Change-Point Detection by Sample-Splitting Methods
Implements multiple change searching algorithms for a variety of frequently considered parametric change-point models. In particular, it integrates a criterion proposed by Zou, Wang and Li (2020) <doi:10.1214/19-AOS1814> to select the number of change-points in a data-driven fashion. Moreover, it also provides interfaces for user-customized change-point models with one's own cost function and parameter estimation routine. It is easy to get started with the cpss.* set of functions by accessing their documentation pages (e.g., ?cpss).
Maintained by Guanghui Wang. Last updated 3 years ago.
8.2 match 1 stars 2.70 score 5 scripts
ichcha-m
cophescan:Adaptation of the Coloc Method for PheWAS
A Bayesian method for Phenome-wide association studies (PheWAS) that identifies causal associations between genetic variants and traits, while simultaneously addressing confounding due to linkage disequilibrium. For details see Manipur et al (2023) <doi:10.1101/2023.06.29.546856>.
Maintained by Ichcha Manipur. Last updated 9 months ago.
3.8 match 6 stars 5.76 score 24 scripts
bfifield
hettx:Fisherian and Neymanian Methods for Detecting and Measuring Treatment Effect Variation
Implements methods developed by Ding, Feller, and Miratrix (2016) <doi:10.1111/rssb.12124> <arXiv:1412.5000>, and Ding, Feller, and Miratrix (2018) <doi:10.1080/01621459.2017.1407322> <arXiv:1605.06566> for testing whether there is unexplained variation in treatment effects across observations, and for characterizing the extent of the explained and unexplained variation in treatment effects. The package includes wrapper functions implementing the proposed methods, as well as helper functions for analyzing and visualizing the results of the test.
Maintained by Ben Fifield. Last updated 2 years ago.
3.9 match 10 stars 5.32 score 21 scriptsbioc
BubbleTree:BubbleTree: an intuitive visualization to elucidate tumoral aneuploidy and clonality in somatic mosaicism using next generation sequencing data
CNV analysis in groups of tumor samples.
Maintained by Todd Creasy. Last updated 5 months ago.
copynumbervariationsoftwaresequencingcoverage
4.5 match 3.95 score 15 scripts
finleya
spBayes:Univariate and Multivariate Spatial-Temporal Modeling
Fits univariate and multivariate spatio-temporal random effects models for point-referenced data using Markov chain Monte Carlo (MCMC). Details are given in Finley, Banerjee, and Gelfand (2015) <doi:10.18637/jss.v063.i13> and Finley and Banerjee <doi:10.1016/j.envsoft.2019.104608>.
Maintained by Andrew Finley. Last updated 6 months ago.
3.6 match 1 stars 4.69 score 231 scripts 7 dependents
ss3sim
ss3sim:Fisheries Stock Assessment Simulation Testing with Stock Synthesis
A framework for fisheries stock assessment simulation testing with Stock Synthesis (SS3) as described in Anderson et al. (2014) <doi:10.1371/journal.pone.0092725>.
Maintained by Kelli F. Johnson. Last updated 5 months ago.
fisheriessimulationstock-synthesis
1.7 match 39 stars 8.89 score 149 scripts
dmmelamed
catregs:Post-Estimation Functions for Generalized Linear Mixed Models
Several functions for working with mixed effects regression models for limited dependent variables. The functions facilitate post-estimation of model predictions or margins, and comparisons between model predictions for assessing or probing moderation. Additional helper functions facilitate model comparisons and implements simulation-based inference for model predictions of alternative-specific outcome models. See also, Melamed and Doan (2024, ISBN: 978-1032509518).
Maintained by David Melamed. Last updated 8 months ago.
4.3 match 3.40 score 28 scripts
trackage
trip:Tracking Data
Access and manipulate spatial tracking data, with straightforward coercion from and to other formats. Filter for speed and create time spent maps from tracking data. There are coercion methods to convert between 'trip' and 'ltraj' from 'adehabitatLT', and between 'trip' and 'psp' and 'ppp' from 'spatstat'. Trip objects can be created from raw or grouped data frames, and from types in the 'sp', sf', 'amt', 'trackeR', 'mousetrap', and other packages, Sumner, MD (2011) <https://figshare.utas.edu.au/articles/thesis/The_tag_location_problem/23209538>.
Maintained by Michael D. Sumner. Last updated 8 months ago.
1.8 match 13 stars 7.72 score 137 scripts 1 dependents
sprfmo
jjmR:Graphics and diagnostics tools for SPRFMO's Joint Jack Mackerel model
Graphics and diagnostics tools for SPRFMO's Joint Jack Mackerel model.
Maintained by Ricardo Oliveros-Ramos. Last updated 5 months ago.
3.4 match 2 stars 3.81 score 12 scripts 1 dependents
repboxr
repboxReg:Repbox module for analysing regressions
Repbox module for analysing regressions
Maintained by Sebastian Kranz. Last updated 30 days ago.
3.4 match 3.71 score 6 scripts 2 dependents
sinnweja
regmed:Regularized Mediation Analysis
Mediation analysis for multiple mediators by penalized structural equation models with different types of penalties depending on whether there are multiple mediators and only one exposure and one outcome variable (using sparse group lasso) or multiple exposures, multiple mediators, and multiple outcome variables (using lasso, L1, penalties).
Maintained by Jason Sinnwell. Last updated 2 years ago.
4.0 match 2 stars 3.00 score 5 scripts
aestears
plantTracker:Extract Demographic and Competition Data from Fine-Scale Maps
Extracts growth, survival, and local neighborhood density information from repeated, fine-scale maps of organism occurrence. Further information about this package can be found in our journal article, "plantTracker: An R package to translate maps of plant occurrence into demographic data" published in 2022 in Methods in Ecology and Evolution (Stears, et al., 2022) <doi:10.1111/2041-210X.13950>.
Maintained by Alice Stears. Last updated 2 years ago.
2.3 match 8 stars 5.18 score 19 scripts
feiyoung
ProFAST:Probabilistic Factor Analysis for Spatially-Aware Dimension Reduction
Probabilistic factor analysis for spatially-aware dimension reduction across multi-section spatial transcriptomics data with millions of spatial locations. More details can be referred to Wei Liu, et al. (2023) <doi:10.1101/2023.07.11.548486>.
Maintained by Wei Liu. Last updated 1 months ago.
1.9 match 2 stars 5.86 score 12 scripts 1 dependentsbioc
omicsViewer:Interactive and explorative visualization of SummarizedExperssionSet or ExpressionSet using omicsViewer
omicsViewer visualizes ExpressionSet (or SummarizedExperiment) in an interactive way. The omicsViewer has a separate back- and front-end. In the back-end, users need to prepare an ExpressionSet that contains all the necessary information for the downstream data interpretation. Some extra requirements on the headers of phenotype data or feature data are imposed so that the provided information can be clearly recognized by the front-end, at the same time, keep a minimum modification on the existing ExpressionSet object. The pure dependency on R/Bioconductor guarantees maximum flexibility in the statistical analysis in the back-end. Once the ExpressionSet is prepared, it can be visualized using the front-end, implemented by shiny and plotly. Both features and samples could be selected from (data) tables or graphs (scatter plot/heatmap). Different types of analyses, such as enrichment analysis (using Bioconductor package fgsea or fisher's exact test) and STRING network analysis, will be performed on the fly and the results are visualized simultaneously. When a subset of samples and a phenotype variable is selected, a significance test on means (t-test or ranked based test; when phenotype variable is quantitative) or test of independence (chi-square or fisher’s exact test; when phenotype data is categorical) will be performed to test the association between the phenotype of interest with the selected samples. Additionally, other analyses can be easily added as extra shiny modules. Therefore, omicsViewer will greatly facilitate data exploration, many different hypotheses can be explored in a short time without the need for knowledge of R. In addition, the resulting data could be easily shared using a shiny server. Otherwise, a standalone version of omicsViewer together with designated omics data could be easily created by integrating it with portable R, which can be shared with collaborators or submitted as supplementary data together with a manuscript.
Maintained by Chen Meng. Last updated 2 months ago.
softwarevisualizationgenesetenrichmentdifferentialexpressionmotifdiscoverynetworknetworkenrichment
1.8 match 4 stars 6.02 score 22 scripts
aphalo
photobiologyInOut:Read Spectral and Logged Data from Foreign Files
Functions for reading, and in some cases writing, foreign files containing spectral data from spectrometers and their associated software, output from daylight simulation models in common use, and some spectral data repositories. As well as functions for exchange of spectral data with other R packages. Part of the 'r4photobiology' suite, Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Maintained by Pedro J. Aphalo. Last updated 17 days ago.
1.7 match 6.32 score 63 scripts 1 dependents
wanchanglin
mt:Metabolomics Data Analysis Toolbox
Functions for metabolomics data analysis: data preprocessing, orthogonal signal correction, PCA analysis, PCA-DA analysis, PLS-DA analysis, classification, feature selection, correlation analysis, data visualisation and re-sampling strategies.
Maintained by Wanchang Lin. Last updated 1 years ago.
2.3 match 3 stars 4.57 score 50 scripts
matthewheun
matsindf:Matrices in Data Frames
Provides functions to collapse a tidy data frame into matrices in a data frame and expand a data frame of matrices into a tidy data frame.
Maintained by Matthew Heun. Last updated 9 days ago.
1.7 match 5 stars 5.48 score 40 scripts
eogrady21
vprr:Processing and Visualization of Video Plankton Recorder Data
An oceanographic data processing package for analyzing and visualizing Video Plankton Recorder data. This package was developed at 'Bedford Institute of Oceanography'. Functions are designed to process automated image classification output and create organized and easily portable data products.
Maintained by Emily OGrady. Last updated 1 months ago.
1.6 match 2 stars 5.61 score 17 scripts
i02momuj
RKEEL:Using 'KEEL' in R Code
'KEEL' is a popular 'Java' software for a large number of different knowledge data discovery tasks. This package takes the advantages of 'KEEL' and R, allowing to use 'KEEL' algorithms in simple R code. The implemented R code layer between R and 'KEEL' makes easy both using 'KEEL' algorithms in R as implementing new algorithms for 'RKEEL' in a very simple way. It includes more than 100 algorithms for classification, regression, preprocess, association rules and imbalance learning, which allows a more complete experimentation process. For more information about 'KEEL', see <http://www.keel.es/>.
Maintained by Jose M. Moyano. Last updated 2 years ago.
3.8 match 2 stars 2.41 score 130 scripts
reedacartwright
rbedrock:Analysis and Manipulation of Data from Minecraft Bedrock Edition
Implements an interface to Minecraft (Bedrock Edition) worlds. Supports the analysis and management of these worlds and game saves.
Maintained by Reed Cartwright. Last updated 18 days ago.
1.7 match 43 stars 5.24 score 3 scripts
jaggh
climatol:Climate Tools (Series Homogenization and Derived Products)
Functions for the quality control, homogenization and missing data filling of climatological series and to obtain climatological summaries and grids from the results. Also functions to display wind-roses, meteograms, Walter&Lieth diagrams, and more.
Maintained by Jose A. Guijarro. Last updated 12 months ago.
3.9 match 2 stars 2.16 score 67 scripts
dachosen1
formulaic:Dynamic Generation and Quality Checks of Formula Objects
Many statistical models and analyses in R are implemented through formula objects. The formulaic package creates a unified approach for programmatically and dynamically generating formula objects. Users may specify the outcome and inputs of a model directly, search for variables to include based upon naming patterns, incorporate interactions, and identify variables to exclude. A wide range of quality checks are implemented to identify issues such as misspecified variables, duplication, a lack of contrast in the inputs, and a large number of levels in categorical data. Variables that do not meet these quality checks can be automatically excluded from the model. These issues are documented and reported in a manner that provides greater accountability and useful information to guide an investigation of the data.
Maintained by Anderson Nelson. Last updated 1 years ago.
formula-objectsformula-parsermachine-learningquality-checkstatistical-models
1.3 match 10 stars 6.10 score 42 scripts 1 dependents
skranz
rgmpl:Helps solving in R linear programming models specified in GMPL
Tools that help to solve linear programming models specified in GMPL
Maintained by Sebastian Kranz. Last updated 3 years ago.
3.7 match 2.18 score 1 scripts 1 dependents
lbelzile
BMAmevt:Multivariate Extremes: Bayesian Estimation of the Spectral Measure
Toolkit for Bayesian estimation of the dependence structure in multivariate extreme value parametric models, following Sabourin and Naveau (2014) <doi:10.1016/j.csda.2013.04.021> and Sabourin, Naveau and Fougeres (2013) <doi:10.1007/s10687-012-0163-0>.
Maintained by Leo Belzile. Last updated 2 years ago.
2.0 match 3.90 score 16 scripts
penncil
xmeta:A Toolbox for Multivariate Meta-Analysis
A toolbox for meta-analysis. This package includes: 1,a robust multivariate meta-analysis of continuous or binary outcomes; 2, a bivariate Egger's test for detecting small study effects; 3, Galaxy Plot: A New Visualization Tool of Bivariate Meta-Analysis Studies; 4, a bivariate T&F method accounting for publication bias in bivariate meta-analysis, based on symmetry of the galaxy plot. Hong C. et al(2020) <doi:10.1093/aje/kwz286>, Chongliang L. et al(2020) <doi:10.1101/2020.07.27.20161562>; 5, a method for Composite Likelihood Network Meta-Analysis without knowledge of within-study variance and accounting for small sample effect sizes.
Maintained by Jiajie Chen. Last updated 9 months ago.
2.3 match 3 stars 3.38 score 9 scripts
kopflab
lans2r:Work with Look at NanoSIMS Data in R
R interface for working with nanometer scale secondary ion mass spectrometry (NanoSIMS) data exported from Look at NanoSIMS.
Maintained by Sebastian Kopf. Last updated 2 years ago.
geobiologygeochemistryisotopesnanosims
1.7 match 4.32 score 14 scripts
cran
BPM:Bayesian Purity Model to Estimate Tumor Purity
Bayesian purity model to estimate tumor purity using methylation array data (DNA methylation Infinium 450K array data) without reference samples.
Maintained by Jianzhao Gao and Xiaodan Fan. Last updated 6 years ago.
3.5 match 1 stars 2.00 score 5 scripts
erichare
bulletr:Algorithms for Matching Bullet Lands
Analyze bullet lands using nonparametric methods. We provide a reading routine for x3p files (see <http://www.openfmc.org> for more information) and a host of analysis functions designed to assess the probability that two bullets were fired from the same gun barrel.
Maintained by Eric Hare. Last updated 7 years ago.
1.8 match 3.72 score 52 scripts
peter-t-ruehr
forceR:Force Measurement Analyses
For cleaning and analysis of graphs, such as animal closing force measurements. 'forceR' was initially written and optimized to deal with insect bite force measurements, but can be used for any time series. Includes a full workflow to load, plot and crop data, correct amplifier and baseline drifts, identify individual peak shapes (bites), rescale (normalize) peak curves, and find best polynomial fits to describe and analyze force curve shapes.
Maintained by Peter T. Rühr. Last updated 12 months ago.
1.7 match 3.70 score 10 scriptssprfmo
FLjjm:Running the JJM Stock Assessment Model Inside the MSE FLR System
Runs the JJM stock assessment model for Chilean Jack Mackerel inside the MSE system of FLR's mse package.
Maintained by Iago Mosqueira. Last updated 9 days ago.
1.7 match 3.74 score 3 scripts
jgill22
BaM:Functions and Datasets for "Bayesian Methods: A Social and Behavioral Sciences Approach"
Functions and datasets for Jeff Gill: "Bayesian Methods: A Social and Behavioral Sciences Approach". First, Second, and Third Edition. Published by Chapman and Hall/CRC (2002, 2007, 2014) <doi:10.1201/b17888>.
Maintained by Jeff Gill. Last updated 2 years ago.
4.0 match 1 stars 1.43 score 27 scripts
yili-hong
SPREDA:Statistical Package for Reliability Data Analysis
The Statistical Package for REliability Data Analysis (SPREDA) implements recently-developed statistical methods for the analysis of reliability data. Modern technological developments, such as sensors and smart chips, allow us to dynamically track product/system usage as well as other environmental variables, such as temperature and humidity. We refer to these variables as dynamic covariates. The package contains functions for the analysis of time-to-event data with dynamic covariates and degradation data with dynamic covariates. The package also contains functions that can be used for analyzing time-to-event data with right censoring, and with left truncation and right censoring. Financial support from NSF and DuPont are acknowledged.
Maintained by Yili Hong. Last updated 6 years ago.
4.0 match 1.43 score 27 scriptscran
rlc:Create Interactive Linked Charts with Minimal Code
An easy-to-use tool to employ interactivity in every-day exploratory analysis. It contains a collection of most commonly used types of charts (such as scatter plots, line plots, heatmaps, bar charts), which can be linked to each other or to other interactive elements with just few lines of code.
Maintained by Svetlana Ovchinnikova. Last updated 1 years ago.
3.3 match 1.70 scorebioc
chromDraw:chromDraw is a R package for drawing the schemes of karyotypes in the linear and circular fashion.
ChromDraw is a R package for drawing the schemes of karyotype(s) in the linear and circular fashion. It is possible to visualized cytogenetic marsk on the chromosomes. This tool has own input data format. Input data can be imported from the GenomicRanges data structure. This package can visualized the data in the BED file format. Here is requirement on to the first nine fields of the BED format. Output files format are *.eps and *.svg.
Maintained by Jan Janecka. Last updated 5 months ago.
1.7 match 3.30 score 1 scripts
pridiltal
clap:Detecting Class Overlapping Regions in Multidimensional Data
The issue of overlapping regions in multidimensional data arises when different classes or clusters share similar feature representations, making it challenging to delineate distinct boundaries between them accurately. This package provides methods for detecting and visualizing these overlapping regions using partitional clustering techniques based on nearest neighbor distances.
Maintained by Priyanga Dilini Talagala. Last updated 8 months ago.
1.7 match 1 stars 3.18 score 2 scriptsskranz
rampl:Tools to work with AMPL from R
Tools to work with AMPL from R. Writing AMPL dat files, running AMPL locally or using the NEOS solvers.
Maintained by Sebastian Kranz. Last updated 4 years ago.
2.4 match 2.16 score 29 scriptscran
wnl:Minimization Tool for Pharmacokinetic-Pharmacodynamic Data Analysis
This is a set of minimization tools (maximum likelihood estimation and least square fitting) to solve examples in the Johan Gabrielsson and Dan Weiner's book "Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications" 5th ed. (ISBN:9198299107). Examples include linear and nonlinear compartmental model, turn-over model, single or multiple dosing bolus/infusion/oral models, allometry, toxicokinetics, reversible metabolism, in-vitro/in-vivo extrapolation, enterohepatic circulation, metabolite modeling, Emax model, inhibitory model, tolerance model, oscillating response model, enantiomer interaction model, effect compartment model, drug-drug interaction model, receptor occupancy model, and rebound phenomena model.
Maintained by Kyun-Seop Bae. Last updated 24 days ago.
3.3 match 1 stars 1.48 score 6 scriptsbioc
GladiaTOX:R Package for Processing High Content Screening data
GladiaTOX R package is an open-source, flexible solution to high-content screening data processing and reporting in biomedical research. GladiaTOX takes advantage of the tcpl core functionalities and provides a number of extensions: it provides a web-service solution to fetch raw data; it computes severity scores and exports ToxPi formatted files; furthermore it contains a suite of functionalities to generate pdf reports for quality control and data processing.
Maintained by PMP S.A. R Support. Last updated 5 months ago.
softwareworkflowstepnormalizationpreprocessingqualitycontrol
1.2 match 4.00 score 2 scriptscran
MultiVarMI:Multiple Imputation for Multivariate Data
Fully parametric Bayesian multiple imputation framework for massive multivariate data of different variable types as seen in Demirtas, H. (2017) <doi:10.1007/978-981-10-3307-0_8>.
Maintained by Rawan Allozi. Last updated 7 years ago.
4.5 match 1.00 score
sduxbury
rewie:Data Preparation and Diagnostics for Random Effects Within Estimator
Diagnostics and data preparation for random effects within estimator, random effects within-idiosyncratic estimator, between-within-idiosyncratic model, and cross-classified between model. Mundlak, Yair (1978) <doi:10.2307/1913646>. Hausman, Jeffrey (1978) <doi:10.2307/1913827>. Allison, Paul (2009) <doi:10.4135/9781412993869>. Neuhaus, J.M., and J. D. Kalbfleisch (1998) <doi:10.2307/3109770>.
Maintained by Scott Duxbury. Last updated 5 years ago.
2.3 match 1 stars 2.00 score
mehrabgbari
malani:Machine Learning Assisted Network Inference
Find dark genes. These genes are often disregarded due to no detected mutation or differential expression, but are important in coordinating the functionality in cancer networks.
Maintained by Mehrab Ghanat Bari. Last updated 8 years ago.
3.8 match 1.00 score 2 scriptskwb-r
kwb.vs2dh:Interface to VS2DH
Interface to the open-source model USGS model VS2DH for simulation of water and energy transport in variable-saturated porous media (for more information see: http://wwwbrr.cr.usgs.gov/projects/GW_Unsat/vs2di1.3/).
Maintained by Michael Rustler. Last updated 6 years ago.
groundwater-modellingproject-demeauusgsvs2dh
1.7 match 2.18 score 1 scripts 1 dependentscran
acc:Exploring Accelerometer Data
Processes accelerometer data from uni-axial and tri-axial devices, and generates data summaries. Also includes functions to plot, analyze, and simulate accelerometer data.
Maintained by Jaejoon Song. Last updated 8 years ago.
1.6 match 1 stars 2.26 score 30 scriptscran
CCTpack:Consensus Analysis, Model-Based Clustering, and Cultural Consensus Theory Applications
Consensus analysis, model-based clustering, and cultural consensus theory applications to response data (e.g. questionnaires). The models are applied using hierarchical Bayesian inference. The current package version supports binary, ordinal, and continuous data formats.
Maintained by Royce Anders. Last updated 7 years ago.
2.8 match 1 stars 1.32 score 21 scripts
wenchao-ma
ACTCD:Asymptotic Classification Theory for Cognitive Diagnosis
Cluster analysis for cognitive diagnosis based on the Asymptotic Classification Theory (Chiu, Douglas & Li, 2009; <doi:10.1007/s11336-009-9125-0>). Given the sample statistic of sum-scores, cluster analysis techniques can be used to classify examinees into latent classes based on their attribute patterns. In addition to the algorithms used to classify data, three labeling approaches are proposed to label clusters so that examinees' attribute profiles can be obtained.
Maintained by Wenchao Ma. Last updated 1 years ago.
3.4 match 1.00 score 7 scriptscran
NAEPprimer:The NAEP Primer
Contains a sample of the 2005 Grade 8 Mathematics data from the National Assessment of Educational Progress (NAEP). This data set is called the NAEP Primer.
Maintained by Emmanuel Sikali. Last updated 9 years ago.
1.7 match 1.78 score 2 dependentsskranz
RoundingMatters:Tools for adjusting for rounding problems in metastudies about p-hacking and publication bias
Tools for adjusting for rounding problems in metastudies about p-hacking and publication bias
Maintained by Sebastian Kranz. Last updated 4 years ago.
1.7 match 1.70 score 8 scriptscran
BeyondBenford:Compare the Goodness of Fit of Benford's and Blondeau Da Silva's Digit Distributions to a Given Dataset
Allows to compare the goodness of fit of Benford's and Blondeau Da Silva's digit distributions in a dataset. It is used to check whether the data distribution is consistent with theoretical distributions highlighted by Blondeau Da Silva or not (through the dat.distr() function): this ideal theoretical distribution must be at least approximately followed by the data for the use of Blondeau Da Silva's model to be well-founded. It also enables to plot histograms of digit distributions, both observed in the dataset and given by the two theoretical approaches (with the digit.ditr() function). Finally, it proposes to quantify the goodness of fit via Pearson's chi-squared test (with the chi2() function).
Maintained by Blondeau Da Silva Stephane. Last updated 5 years ago.
2.8 match 1.00 score
ajdamico
SAScii:Import ASCII Files Directly into R using Only a 'SAS' Input Script
Using any importation code designed for 'SAS' users to read ASCII files into 'sas7bdat' files, this package parses through the INPUT block of a '.sas' syntax file to design the parameters needed for a 'read.fwf()' function call. This allows the user to specify the location of the ASCII (often a '.dat') file and the location of the 'SAS' syntax file, and then load the data frame directly into R in just one step.
Maintained by Anthony Joseph Damico. Last updated 2 years ago.
0.5 match 21 stars 5.19 score 248 scripts 1 dependents
wangyuncw
CIS.DGLM:Covariates, Interaction, and Selection for DGLM
An implementation of double generalized linear model (DGLM) building with variable selection procedures and handling of interaction terms and other complex situations. We also provide a method of handling convergence issues within the dglm() function. The package offers a simulation function for generating simulated data for testing purposes and utilizes the forward stepwise variable selection procedure in model-building. It also provides a new custom bootstrap function for mean and standard deviation estimation and functions for building crossplots and squareplots from a data set.
Maintained by Yishi Wang. Last updated 3 years ago.
1.9 match 1.00 score
jhhmuc
holland:Statistics for Holland's Theory of Vocational Choice
Offers a convenient way to compute parameters in the framework of the theory of vocational choice introduced by J.L. Holland, (1997). A comprehensive summary to this theory of vocational choice is given in Holland, J.L. (1997). Making vocational choices. A theory of vocational personalities and work environments. Lutz, FL: Psychological Assessment.
Maintained by Joerg-Henrik Heine. Last updated 4 years ago.
1.7 match 1.00 score 1 scripts
yimenaraya-ajoy
MultiRR:Bias, Precision, and Power for Multi-Level Random Regressions
Calculates bias, precision, and power for multi-level random regressions. Random regressions are types of hierarchical models in which data are structured in groups and (regression) coefficients can vary by groups. Tools to estimate model performance are designed mostly for scenarios where (regression) coefficients vary at just one level. 'MultiRR' provides simulation and analytical tools (based on 'lme4') to study model performance for random regressions that vary at more than one level (multi-level random regressions), allowing researchers to determine optimal sampling designs.
Maintained by Yimen G. Araya-Ajoy. Last updated 9 years ago.
1.6 match 1.00 score
sustainscapes
TroublemakeR:Generates Spatial Problems in R for 'AMPL'
Provides methods for generating .dat files for use with the 'AMPL' software using spatial data, particularly rasters. It includes support for various spatial data formats and different problem types. By automating the process of generating 'AMPL' datasets, this package can help streamline optimization workflows and make it easier to solve complex optimization problems. The methods implemented in this package are described in detail in a publication by Fourer et al. (<doi:10.1287/mnsc.36.5.519>).
Maintained by Derek Corcoran. Last updated 2 months ago.
0.5 match 3.18 score 4 scriptsi02momuj
RKEELdata:Datasets from 'KEEL' for it Use in 'RKEEL'
'KEEL' is a popular Java software for a large number of different knowledge data discovery tasks. Furthermore, 'RKEEL' is a package with a R code layer between R and 'KEEL', for using 'KEEL' in R code. This package includes the datasets from 'KEEL' in .dat format for its use in 'RKEEL' package. For more information about 'KEEL', see <http://www.keel.es/>.
Maintained by Jose M. Moyano. Last updated 7 years ago.
0.5 match 1.48 score 2 scripts 1 dependents