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spEDM 1.12

new

  • Correct maintainer surname spelling from Lv to Lyu for pinyin compliance (#966).

enhancements

  • Support data slicing by library and prediction sets for large scale pattern causality computation (#985).

  • Assign zero to missing pattern causality values for positive, negative, and dark categories in returned results (#983).

  • Qualify function calls in examples with namespace for reproducibility (#971).

  • Inject plain-text terminal hint to fnn output (#965).

  • Unify preprocessing strategies for embedding parameters E and tau across spatial causal discovery algorithms (#960).

  • Enable asymmetric configurations (E, tau, k) in bidirectional pattern causality analysis (#955).

breaking changes

  • Match causality detection direction in optimal parameter search to actual variable naming (#995).

  • Ensure that k is constrained to be greater than or equal to E during optimal parameter search (#990).

  • Switch the random parameter to replace in the gpc generic implementation and revise the sampling logic accordingly (#987).

  • Rename NA handling argument from NA_rm to na_rm and change default value to true (#968).

  • Align conds parameter in scpcm generic to accept condition variables in direct path order for causal mediation analysis (#961).

bug fixes

  • Resolve visualization failure when probing only one direction of causality with bidirectional set to FALSE (#981).

  • Correct mismatch between causal strength direction and prediction direction in pattern causality (#978).

  • Fix incorrect midpoint-based pattern causality classification (#973).

spEDM 1.11

bug fixes

  • Eliminate default initialization pollution from NaN-skipped elements in library and prediction sets (#951).

  • Resolve macOS CRAN check failures caused by missing #include directives for string and utility headers (#948).

spEDM 1.10

new

  • Provide R-level API and vignette for spatially convergent partial cross mapping (#936).

enhancements

  • Trim console output for geographical pattern causality results (#942).

  • Enforce include order to prevent R headers from preceding Rcpp headers (#932).

  • Support optional white noise in spatial logistic map simulation (#922).

  • Align vignette metadata with index entry for correct cran listing (#920).

spEDM 1.9

new

  • Provide R-level API and vignette for geographical pattern causality (#868).

  • Introduce cross mapping of raster data with anisotropic embedding and variable sliding window steps (#812).

  • Extend capabilities to incorporate mean-based and stacked spatial cross-sectional embeddings in cross mapping (#800).

enhancements

  • Drive extension of slm generics with custom aggregation capabilities (#912).

  • Permit simplex and ic generics to accept varying E, k, and tau inputs (#900).

  • Calibrate spacing conventions and enable real execution of available-thread detection (#885).

  • Maintain consistent double precision floating-point comparisons across cpp sources (#850).

  • Unify font specification in S3 plotting method for cross-mapping results (#830).

  • Support spatial grid(raster) data detrending with cell center coordinates or row/column numbers (#815).

  • Adjust Makevars to track latest rcpparmadillo release and armadillo updates improving build integration and forward compatibility (#785).

breaking changes

  • Remove redundant internal case data (cu.tif) from the package (#828).

  • Harmonize parameter order across s4 generics for spatial vector and raster data (#817).

spEDM 1.8

new

  • Provide new mechanisms for variable interaction in the spatial logistic map (#772).

  • Introduce configurable distance metrics for cross mapping (#761).

  • Enable alternative styles of spatial cross-sectional embedding (#755).

enhancements

  • Safeguard transient removal logic in spatial logistic map to prevent index errors (#744).

  • Adjust the default E range in the simplex generic to 2:10 to support more robust reconstruction of state spaces (#739).

  • Introduce multi-threading in distance-related computations where applicable to improve runtime efficiency (#718).

  • Display p-value annotation for maximum library size in cross mapping visualization legend (#710).

breaking changes

  • Prevent unreliable predictions and potentially alter results when NaNs are present in cross mapping (#747).

  • Rename coordinate columns in population density case csv to lon and lat (#741).

spEDM 1.7

new

  • Provide R-level API and vignette for spatial logistic map (#609,#612).

enhancements

  • Replace logical vectors with integer index vectors for lib and pred in simplex and s-mapping forecasting sources (#632).

  • Prevent duplicate generic registrations and simplify method definitions (#627).

  • Unify parameter descriptions to lowercase (#570).

  • Introduce confidence interval ribbon support in plot method for gccm results (#550).

breaking changes

  • Refine randomization strategy in spatial causality test (#643).

  • Symbolization C++ functions now compute medians from lib subset only (#599).

  • Users must now use detrend instead of trend.rm (#559).

  • Enable column parameter in simplex() and smap() and rename columns parameter to column in multiview() (#565).

bug fixes

  • Fix bug in plot method for gccm results where legend labels did not correctly match the corresponding line colors (#552).

spEDM 1.6

new

  • Enact fnn R API support for false nearest neighbours method (#512).

  • Integrate R API and vignette for geographical cross mapping cardinality (#455).

  • Provide R-level API and vignette for spatial causality test (#403).

enhancements

  • Enable custom legend texts and colors in plot method for gccm results (#535).

  • Reduce computational load in vignettes (#476).

  • Document overall structure and usage of spEDM in a dedicated vignette (#415).

  • Create SSR vignette for spatial cross-sectional data state-space reconstruction (#412).

  • Include references for algorithms in spEDM (#367).

breaking changes

  • Use non-NA spatial units for lib/pred by default (#499).

  • Refine internal case data (#348).

bug fixes

  • Patch memory error caused by mismatch between C++ (0-based) and R (1-based) indexing (#480).

  • Fix error from non-matrix input in grid-type handling due to R matrix slicing (#474).

spEDM 1.5

new

  • Enable parallel.level parameter to specify parallel granularity in gccm R API (#310).

  • Implement the multiview function for multiview embedding forecasting (MVE) method (#221).

enhancements

  • Integrate lib parameter in gccm R API for library units selection (#278).

  • Set the default k to E+2 in the gccm R API (#261).

  • Eliminate redundant computations at the source C++ code level (#233).

  • Add trend.rm option in the R API for embedded, simplex, and smap methods to align with gccm behavior (#191).

  • Refactor indexing of lag values and embedding vector generation for spatial lattice (#186,#184) and grid data (#183,#181).

breaking changes

  • Default plotting method places the legend in the top-left corner of the plot now (#325).

  • Refine simplex & smap output on the R side (#263).

bug fixes

  • Fix bug in R functions embedded, simplex, smap when input data contains only one attribute column (#246).

spEDM 1.4

enhancements

  • Improve default spatial neighbors list generation for spatial lattice data with support from the sdsfun package (#159).

breaking changes

  • Adjust the behavior of the tau parameter in the C++ source code and update the R side API (#154).

spEDM 1.3

new

  • Implement the smap function to enable the selection of the optimal theta parameter (#128).

  • Add simplex function to support selecting the optimal embedding dimension for variables (#98).

  • Provide an R-level API for generating embeddings (#97).

enhancements

  • Now bidirectional mapping in the gccm result uses a full join structure when organized on the R side (#118).

  • Support for calculating unidirectional mappings in the gccm function (#117).

  • Relax gccm C++ source code libsizes minimum value constraint of E+2 (#109).

  • Provide a complete GCCM workflow for spatial lattice and grid data in the gccm vignette (#100).

  • Support testing causal links in GCCM with different E and k for cause and effect variables (#96).

  • Add thread settings for gccm generic (#94).

  • Add S-maps cross-prediction support to gccm generic (#81).

bug fixes

  • Resolve r crash caused by invalid E #90 and k #89 parameter settings in gccm.

  • Fix incorrect Pearson correlation calculation in C++ code when input contains NA (#83).

spEDM 1.2

enhancements

  • Encapsulate the gccm generic using the S4 class (#72).

  • Add options for tau, k, and progressbar in gccm (#69).

  • Add print and plot s3 methods for gccm result (#64).

bug fixes

  • Fix the bug where the gccm generic returns empty result when input grid data contains NA values (#61).

spEDM 1.1

bug fixes

  • Resolve CRAN auto check issues, no significant API changes.

spEDM 1.0

new

  • Implement gccm generic for spatial lattice and grid data using modern C++.