Package index
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wisp() - Fit wisp to count data
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print(<wisp>) - Print a fitted wisp model
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summary(<wisp>) - Summarize a fitted wisp model
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print(<summary.wisp>) - Print a wisp model summary
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coef(<wisp>) - Fitted parameter estimates from a wisp model
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confint(<wisp>) - Confidence intervals for wisp model parameters
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residuals(<wisp>) - Residuals from a fitted wisp model
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plot(<wisp>) - Plot a fitted wisp model
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wisp_warp() - Wisp warping function, implemented in R
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demo_warp_plots() - Make plot demonstrating how the wisp function is warped by the warping factors
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wisp_sigmoid() - Wisp sigmoid function, implemented in R
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demo_sigmoid_plots() - Make plot demonstrating how the wisp function is determined by the Rt, slope, and tpoint parameters
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analyze_residuals() - Analyze residuals from wisp fit
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sample_stats() - Estimate p-values and confidence intervals from resampled parameters
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attractor_simulation_ground_truth() - Function to extract ground-truth from attractor-based simulation made with the function
attractor_simulation -
attractor_simulation() - Function to simulate data using attractor-based spatial variability
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model_attractor_simulation_wisp() - Function to model simulation with wisp
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run_attractor_sim_benchmarks() - Function to run benchmarks on attractor-based simulations
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analyze_attractor_sim_benchmarks() - Function to analyze benchmark results from attractor-based simulations
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make_count_data() - Load and parse data, HDF5
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make_count_data_csv() - Load and parse data, csv
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cortical_coordinate_transform() - Function to transform coordinates for each mouse and extract layer boundary estimates
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create_count_data_WSPmm() - Function to convert to WSPmm format
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create_count_data_WSPmm_allen() - Function to convert Allen-formatted MERFISH data to WSPmm format