{ "_id": "6ae4c91c8d250e7ad09f26f7", "Package": "fdasrvf", "Type": "Package", "Title": "Elastic Functional Data Analysis", "Version": "2.5.1.9000", "Date": "2026-10-29", "Authors@R": "c(\nperson(given = \"J. Derek\",\nfamily = \"Tucker\",\nrole = c(\"aut\", \"cre\"),\nemail = \"jdtuck@sandia.gov\",\ncomment = c(ORCID = \"0000-0001-8844-2169\")),\nperson(given = \"Aymeric\",\nfamily = \"Stamm\",\nrole = \"ctb\",\nemail = \"aymeric.stamm@math.cnrs.fr\",\ncomment = c(ORCID = \"0000-0002-8725-3654\")))", "Description": "Performs alignment, PCA, and modeling of multidimensional\nand unidimensional functions using the square-root velocity\nframework (Srivastava et al., 2011\n and Tucker et al., 2014\n). This framework allows for\nelastic analysis of functional data through phase and amplitude\nseparation.", "License": "GPL-3", "LazyData": "TRUE", "Encoding": "UTF-8", "Config/testthat/edition": "3", "Roxygen": "list(markdown = TRUE)", "URL": "https://github.com/jdtuck/fdasrvf_R", "BugReports": "https://github.com/jdtuck/fdasrvf_R/issues", "Config/roxygen2/version": "8.1.1", "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev libssl-dev", "Repository": "https://jdtuck.r-universe.dev", "Date/Publication": "2026-10-30 14:20:31 UTC", "RemoteUrl": "https://github.com/jdtuck/fdasrvf_r", "RemoteRef": "HEAD", "RemoteSha": "da551a77239506bf1e7a3e24199c344961be9e3b", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-10-30 16:14:42 UTC", "User": "root" }, "Author": "J. Derek Tucker [aut, cre] (ORCID:\n),\nAymeric Stamm [ctb] (ORCID: )", "Maintainer": "J. 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(port from MATLAB) (#88)\n\n* Rewrite RBFGS alignment to follow Huang et al. (port from MATLAB)\n\nPort fdasrvf_MATLAB c6c823d. The RBFGS solver stalled on warps with\nkinks: its continuum gradient was not a descent direction for the\ndiscretized cost. It now follows \"Riemannian optimization for\nregistration of curves in elastic shape analysis\" for the warping alone:\n\n- optimize l = sqrt(gamma') on the unit sphere with limited-memory RBFGS,\n exponential map steps and parallel translation of the BFGS pairs\n- add the paper's barrier with weight 1/100 cut by 0.8 each iteration and\n its relative cost stopping rule (new stop reason 4)\n- represent q2 by a natural cubic spline and differentiate the discretized\n cost exactly\n- refine the coarse DP warp on SRVFs resampled linearly scl times finer\n- score the RBFGS tests on DP's objective and add tests on the growth\n velocities and on starting from gam0\n\nR keeps its 101 point coarse DP start and the lambda = 0 fallback to\nthe DP start: on DP's objective the worst random pair is 1.03x DP's\ncost, against 1.4x with MATLAB's 51 points.\n\nCo-Authored-By: Claude Opus 5.5 \nClaude-Session: https://claude.ai/code/session_01QL8kAHBjihqbLmzY38Mfg3\n\n* Start RBFGS from a 51 point DP 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"Converts a curve from matrix to functional data object", "topics": [ "discrete2curve" ] }, { "page": "discrete2warping", "title": "Converts a warping function from vector to functional data object", "topics": [ "discrete2warping" ] }, { "page": "elastic_amp_change_ff", "title": "Elastic Amplitude Changepoint Detection", "topics": [ "elastic_amp_change_ff" ] }, { "page": "elastic_change_fpca", "title": "Elastic Changepoint Detection", "topics": [ "elastic_change_fpca" ] }, { "page": "elastic_ph_change_ff", "title": "Elastic Phase Changepoint Detection", "topics": [ "elastic_ph_change_ff" ] }, { "page": "elastic.depth", "title": "Calculates elastic depth", "concept": [ "srvf alignment" ], "topics": [ "elastic.depth" ] }, { "page": "elastic.distance", "title": "Calculates two elastic distance", "concept": [ "srvf alignment" ], "topics": [ "elastic.distance" ] }, { "page": "elastic.logistic", "title": "Elastic Logistic Regression", "topics": [ "elastic.logistic" ] }, { "page": "elastic.lpcr.regression", "title": "Elastic logistic Principal Component Regression", "topics": [ "elastic.lpcr.regression" ] }, { "page": "elastic.mlogistic", "title": "Elastic Multinomial Logistic Regression", "topics": [ "elastic.mlogistic" ] }, { "page": "elastic.mlpcr.regression", "title": "Elastic Multinomial logistic Principal Component Regression", "topics": [ "elastic.mlpcr.regression" ] }, { "page": "elastic.pcr.regression", "title": "Elastic Linear Principal Component Regression", "topics": [ "elastic.pcr.regression" ] }, { "page": "elastic.prediction", "title": "Elastic Prediction from Regression Models", "topics": [ "elastic.prediction" ] }, { "page": "elastic.regression", "title": "Elastic Linear Regression", "topics": [ "elastic.regression" ] }, { "page": "f_plot", "title": "Plot functional data", "topics": [ "f_plot" ] }, { "page": "f_to_srvf", "title": "Transformation to SRVF Space", "topics": [ "f_to_srvf" ] }, { "page": "fastpns", "title": "Computes fast PNS decomposition", "topics": [ "fastpns" ] }, { "page": "fastPNSe2s", "title": "Computes fast PNS euclidean to sphere", "topics": [ "fastPNSe2s" ] }, { "page": "fastPNSs2e", "title": "Computes fast PNS sphere to euclidean", "topics": [ "fastPNSs2e" ] }, { "page": "fdasrvf", "title": "Elastic Functional Data Analysis", "topics": [ "fdasrvf-package", "fdasrvf" ] }, { "page": "function_group_warp_bayes", "title": "Bayesian Group Warping", "concept": [ "srsf alignment" ], "topics": [ "function_group_warp_bayes" ] }, { "page": "function_mean_bayes", "title": "Bayesian Karcher Mean Calculation", "concept": [ "srsf alignment" ], "topics": [ "function_mean_bayes" ] }, { "page": "gam_to_h", "title": "map warping function to tangent space at identity", "topics": [ "gam_to_h" ] }, { "page": "gam_to_psi", "title": "map warping function to hilbert sphere", "topics": [ "gam_to_psi" ] }, { "page": "gam_to_v", "title": "map warping function to tangent space at identity", "topics": [ "gam_to_v" ] }, { "page": "gauss_model", "title": "Gaussian model of functional data", "topics": [ "gauss_model" ] }, { "page": "get_curve_centroid", "title": "Computes the centroid of a curve", "topics": [ "get_curve_centroid" ] }, { "page": "get_distance_matrix", "title": "Computes the distance matrix between a set of shapes.", "topics": [ "get_distance_matrix" ] }, { "page": "get_hilbert_sphere_distance", "title": "Computes the geodesic distance between two SRVFs on the Hilbert sphere", "topics": [ "get_hilbert_sphere_distance" ] }, { "page": "get_identity_warping", "title": "Computes the identity warping function", "topics": [ "get_identity_warping" ] }, { "page": "get_l2_distance", "title": "Computes the L^2 distance between two SRVFs", "topics": [ "get_l2_distance" ] }, { "page": "get_l2_inner_product", "title": "Computes the L^2 inner product between two SRVFs", "topics": [ "get_l2_inner_product" ] }, { "page": "get_l2_norm", "title": "Computes the L^2 norm of an SRVF", "topics": [ "get_l2_norm" ] }, { "page": "get_shape_distance", "title": "Computes the distance between two shapes", "topics": [ "get_shape_distance" ] }, { "page": "get_warping_distance", "title": "Computes the distance between two warping functions", "topics": [ "get_warping_distance" ] }, { "page": "gradient", "title": "Gradient using finite differences", "topics": [ "gradient" ] }, { "page": "growth_vel", "title": "Berkeley Growth Velocity Dataset", "topics": [ "growth_vel" ] }, { "page": "h_to_gam", "title": "map shooting vector to warping function at identity", "topics": [ "h_to_gam" ] }, { "page": "horizFPCA", "title": "Horizontal Functional Principal Component Analysis", "topics": [ "horizFPCA" ] }, { "page": "horizFPNS", "title": "Horizontal Functional Principal Component Analysis", "topics": [ "horizFPNS" ] }, { "page": "im", "title": "Example Image Data set", "topics": [ "im" ] }, { "page": "interparc", "title": "Interpolate Equally Spaced Points Along a Closed Curve", "topics": [ "interparc" ] }, { 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