Showing 18 of total 18 results (show query)
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
35.4 match 23 stars 8.07 score 25 scripts 8 dependentsdfsp-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
41.3 match 66 stars 6.47 score 15 scriptscran
morph:3D Segmentation of Voxels into Morphologic Classes
Automatically segments a 3D array of voxels into mutually exclusive morphological elements. This package extends existing work for segmenting 2D binary raster data. A paper documenting this approach has been accepted for publication in the journal Landscape Ecology. Detailed references will be updated here once those are known.
Maintained by Tarmo K. Remmel. Last updated 2 years ago.
55.0 match 1.78 score 1 scriptscran
mcmc:Markov Chain Monte Carlo
Simulates continuous distributions of random vectors using Markov chain Monte Carlo (MCMC). Users specify the distribution by an R function that evaluates the log unnormalized density. Algorithms are random walk Metropolis algorithm (function metrop), simulated tempering (function temper), and morphometric random walk Metropolis (Johnson and Geyer, 2012, <doi:10.1214/12-AOS1048>, function morph.metrop), which achieves geometric ergodicity by change of variable.
Maintained by Charles J. Geyer. Last updated 1 years ago.
11.6 match 7.41 score 154 dependentshelgasoft
echarty:Minimal R/Shiny Interface to JavaScript Library 'ECharts'
Deliver the full functionality of 'ECharts' with minimal overhead. 'echarty' users build R lists for 'ECharts' API. Lean set of powerful commands.
Maintained by Larry Helgason. Last updated 2 months ago.
3danimationboxplotchartscrosstalkechartsechartygeojsonglobegraphsheatmaphierarchical-dataleafletmapsmorphingshapefilesshinyvisualizationwebr
10.0 match 90 stars 5.95 score 20 scriptsluukvdmeer
sfnetworks:Tidy Geospatial Networks
Provides a tidy approach to spatial network analysis, in the form of classes and functions that enable a seamless interaction between the network analysis package 'tidygraph' and the spatial analysis package 'sf'.
Maintained by Lucas van der Meer. Last updated 3 months ago.
geospatial-networksnetwork-analysisrspatialsimple-featuresspatial-analysisspatial-data-sciencespatial-networkstidygraphtidyverse
5.1 match 372 stars 9.63 score 332 scripts 6 dependentsthomasp85
tidygraph:A Tidy API for Graph Manipulation
A graph, while not "tidy" in itself, can be thought of as two tidy data frames describing node and edge data respectively. 'tidygraph' provides an approach to manipulate these two virtual data frames using the API defined in the 'dplyr' package, as well as provides tidy interfaces to a lot of common graph algorithms.
Maintained by Thomas Lin Pedersen. Last updated 1 months ago.
graph-algorithmsgraph-manipulationigraphnetwork-analysistidyversecpp
3.3 match 553 stars 14.74 score 4.6k scripts 136 dependentsjonclayden
mmand:Mathematical Morphology in Any Number of Dimensions
Provides tools for performing mathematical morphology operations, such as erosion and dilation, on data of arbitrary dimensionality. Can also be used for finding connected components, resampling, filtering, smoothing and other image processing-style operations.
Maintained by Jon Clayden. Last updated 12 months ago.
image-processingmorphologyresamplingcppopenmp
5.3 match 37 stars 7.42 score 223 scripts 9 dependentsjohncoene
echarts4r:Create Interactive Graphs with 'Echarts JavaScript' Version 5
Easily create interactive charts by leveraging the 'Echarts Javascript' library which includes 36 chart types, themes, 'Shiny' proxies and animations.
Maintained by David Munoz Tord. Last updated 3 days ago.
echartshacktoberfesthtmlwidgethtmlwidgetsvisualization
3.0 match 603 stars 11.45 score 1.3k scripts 11 dependentsjamesramsay5
fda:Functional Data Analysis
These functions were developed to support functional data analysis as described in Ramsay, J. O. and Silverman, B. W. (2005) Functional Data Analysis. New York: Springer and in Ramsay, J. O., Hooker, Giles, and Graves, Spencer (2009). Functional Data Analysis with R and Matlab (Springer). The package includes data sets and script files working many examples including all but one of the 76 figures in this latter book. Matlab versions are available by ftp from <https://www.psych.mcgill.ca/misc/fda/downloads/FDAfuns/>.
Maintained by James Ramsay. Last updated 4 months ago.
2.3 match 3 stars 12.29 score 2.0k scripts 143 dependentscran
soundgen:Sound Synthesis and Acoustic Analysis
Performs parametric synthesis of sounds with harmonic and noise components such as animal vocalizations or human voice. Also offers tools for audio manipulation and acoustic analysis, including pitch tracking, spectral analysis, audio segmentation, pitch and formant shifting, etc. Includes four interactive web apps for synthesizing and annotating audio, manually correcting pitch contours, and measuring formant frequencies. Reference: Anikin (2019) <doi:10.3758/s13428-018-1095-7>.
Maintained by Andrey Anikin. Last updated 2 months ago.
5.6 match 1 stars 4.86 score 110 scripts 2 dependentsideas-lab-nus
epwshiftr:Create Future 'EnergyPlus' Weather Files using 'CMIP6' Data
Query, download climate change projection data from the 'CMIP6' (Coupled Model Intercomparison Project Phase 6) project <https://pcmdi.llnl.gov/CMIP6/> in the 'ESGF' (Earth System Grid Federation) platform <https://esgf.llnl.gov>, and create future 'EnergyPlus' <https://energyplus.net> Weather ('EPW') files adjusted from climate changes using data from Global Climate Models ('GCM').
Maintained by Hongyuan Jia. Last updated 10 months ago.
climate-changecmip6energyplusepwesgf
3.6 match 33 stars 6.09 score 37 scriptsdavidcsterratt
retistruct:Retinal Reconstruction Program
Reconstructs retinae by morphing a flat surface with cuts (a dissected flat-mount retina) onto a curvilinear surface (the standard retinal shape). It can estimate the position of a point on the intact adult retina to within 8 degrees of arc (3.6% of nasotemporal axis). The coordinates in reconstructed retinae can be transformed to visuotopic coordinates. For more details see Sterratt, D. C., Lyngholm, D., Willshaw, D. J. and Thompson, I. D. (2013) <doi:10.1371/journal.pcbi.1002921>.
Maintained by David C. Sterratt. Last updated 9 days ago.
4.3 match 8 stars 4.60 scoredipterix
threeBrain:Your Advanced 3D Brain Visualization
A fast, interactive cross-platform, and easy to share 'WebGL'-based 3D brain viewer that visualizes 'FreeSurfer' and/or 'AFNI/SUMA' surfaces. The viewer widget can be either standalone or embedded into 'R-shiny' applications. The standalone version only require a web browser with 'WebGL2' support (for example, 'Chrome', 'Firefox', 'Safari'), and can be inserted into any websites. The 'R-shiny' support allows the 3D viewer to be dynamically generated from reactive user inputs. Please check the publication by Wang, Magnotti, Zhang, and Beauchamp (2023, <doi:10.1523/ENEURO.0328-23.2023>) for electrode localization. This viewer has been fully adopted by 'RAVE' <https://rave.wiki>, an interactive toolbox to analyze 'iEEG' data by Magnotti, Wang, and Beauchamp (2020, <doi:10.1016/j.neuroimage.2020.117341>). Please check citation("threeBrain") for details.
Maintained by Zhengjia Wang. Last updated 2 days ago.
brainecogelectroencephalographyieeglocalizationmri-brainneuroimagingtemplate-brains
2.0 match 44 stars 8.24 score 38 scripts 1 dependentswasquith
lmomco:L-Moments, Censored L-Moments, Trimmed L-Moments, L-Comoments, and Many Distributions
Extensive functions for Lmoments (LMs) and probability-weighted moments (PWMs), distribution parameter estimation, LMs for distributions, LM ratio diagrams, multivariate Lcomoments, and asymmetric (asy) trimmed LMs (TLMs). Maximum likelihood and maximum product spacings estimation are available. Right-tail and left-tail LM censoring by threshold or indicator variable are available. LMs of residual (resid) and reversed (rev) residual life are implemented along with 13 quantile operators for reliability analyses. Exact analytical bootstrap estimates of order statistics, LMs, and LM var-covars are available. Harri-Coble Tau34-squared Normality Test is available. Distributions with L, TL, and added (+) support for right-tail censoring (RC) encompass: Asy Exponential (Exp) Power [L], Asy Triangular [L], Cauchy [TL], Eta-Mu [L], Exp. [L], Gamma [L], Generalized (Gen) Exp Poisson [L], Gen Extreme Value [L], Gen Lambda [L, TL], Gen Logistic [L], Gen Normal [L], Gen Pareto [L+RC, TL], Govindarajulu [L], Gumbel [L], Kappa [L], Kappa-Mu [L], Kumaraswamy [L], Laplace [L], Linear Mean Residual Quantile Function [L], Normal [L], 3p log-Normal [L], Pearson Type III [L], Polynomial Density-Quantile 3 and 4 [L], Rayleigh [L], Rev-Gumbel [L+RC], Rice [L], Singh Maddala [L], Slash [TL], 3p Student t [L], Truncated Exponential [L], Wakeby [L], and Weibull [L].
Maintained by William Asquith. Last updated 1 months ago.
flood-frequency-analysisl-momentsmle-estimationmps-estimationprobability-distributionrainfall-frequency-analysisreliability-analysisrisk-analysissurvival-analysis
1.9 match 2 stars 8.06 score 458 scripts 38 dependentsmabafaba
lifx:Control "LIFX" Smart Light Bulbs
Allows you to read and change the state of "LIFX" smart light bulbs Covers most "LIFX" API endpoints, including changing light color and brightness, selecting lights by ID, group or location as well as activating effects.
Maintained by Martin Barner. Last updated 5 years ago.
4.5 match 2.70 score 1 scriptssa-lee
liminal:Multivariate Data Visualization with Tours and Embeddings
Compose interactive visualisations designed for exploratory high-dimensional data analysis. With 'liminal' you can create linked interactive graphics to diagnose the quality of a dimension reduction technique and explore the global structure of a dataset with a tour. A complete description of the method is discussed in ['Lee' & 'Laa' & 'Cook' (2020) <arXiv:2012.06077>].
Maintained by Stuart Lee. Last updated 4 years ago.
embedding-algorithmsinteractive-visualizationst-snetour
2.3 match 5 stars 5.31 score 41 scriptsberndbischl
tspmeta:Instance Feature Calculation and Evolutionary Instance Generation for the Traveling Salesman Problem
Instance feature calculation and evolutionary instance generation for the traveling salesman problem. Also contains code to "morph" two TSP instances into each other. And the possibility to conveniently run a couple of solvers on TSP instances.
Maintained by Bernd Bischl. Last updated 9 years ago.
2.2 match 5 stars 4.08 score 24 scripts