Files in briancohn/retina
Tools for plotting and analyzing vertebrate retinas.

.DS_Store
.Rbuildignore
.Rhistory
.gitignore
.travis.yml
DESCRIPTION
Infusion-Pitch-Final.pdf
NAMESPACE
R/composite.R R/development.md R/matrix_retobj.R R/plotting_functions.R R/polar_plot_from_mat.R R/poly_smoothing.R R/retina-package.r R/retina_object.R R/retistruct_processing_functions.R R/spin_optimization.R README.md
appveyor.yml
data/reef_fish.rdata
demo/.Rapp.history
demo/00Index
demo/batch_retina_object_gen_for_tests.R demo/composite_retina.R demo/fit_diagnostics.R demo/process_retinas.R demo/retinal_perimeter_estimation.R demo/retinaplot_demo.R demo/smoothing_params.R demo/spin_optimization.R demo/tricomposite.R
inst/.DS_Store
inst/extdata/.DS_Store
inst/extdata/Ntae_381/P.csv
inst/extdata/Ntae_381/T.csv
inst/extdata/Ntae_381/datapoints.csv
inst/extdata/Ntae_381/falc.txt
inst/extdata/Ntae_381/falciform.txt
inst/extdata/Ntae_381/markup.csv
inst/extdata/Ntae_381/ntae_381_preoutline.png
inst/extdata/Ntae_381/outline.roi
inst/extdata/Ntae_381/xyz.csv
inst/extdata/Pmol_752/P.csv
inst/extdata/Pmol_752/Pmol_752_outline.png
inst/extdata/Pmol_752/Pmol_752_ssite_locations.csv
inst/extdata/Pmol_752/Pmol_site_counts.csv
inst/extdata/Pmol_752/T.csv
inst/extdata/Pmol_752/datapoints.csv
inst/extdata/Pmol_752/falc.txt
inst/extdata/Pmol_752/markup.csv
inst/extdata/Pmol_752/outline.roi
inst/extdata/Pmol_752/xyz.csv
inst/extdata/Pmol_753/P.csv
inst/extdata/Pmol_753/Pmol_753.PNG
inst/extdata/Pmol_753/T.csv
inst/extdata/Pmol_753/datapoints.csv
inst/extdata/Pmol_753/falc.txt
inst/extdata/Pmol_753/falciform.roi
inst/extdata/Pmol_753/falciform.txt
inst/extdata/Pmol_753/markup.csv
inst/extdata/Pmol_753/outline.roi
inst/extdata/Pmol_753/r.Rdata
inst/extdata/Pmol_753/r.mat
inst/extdata/Pmol_753/xyz.csv
inst/extdata/northern_elephant_seals/NES_count_summary.pdf inst/extdata/northern_elephant_seals/NES_count_summary_MA_11_36.pdf
inst/extdata/test_retinas/3hgbqg/diagram_retina/P.csv
inst/extdata/test_retinas/3hgbqg/diagram_retina/T.csv
inst/extdata/test_retinas/3hgbqg/diagram_retina/datapoints.csv
inst/extdata/test_retinas/3hgbqg/diagram_retina/falc.txt
inst/extdata/test_retinas/3hgbqg/diagram_retina/markup.csv
inst/extdata/test_retinas/3hgbqg/diagram_retina/outline.png
inst/extdata/test_retinas/3hgbqg/diagram_retina/outline.roi
inst/extdata/test_retinas/3hgbqg/diagram_retina/xyz.csv
inst/extdata/test_retinas/3hgbqg/main.r
inst/extdata/test_retinas/40oik5/40oik5.PNG
inst/extdata/test_retinas/40oik5/diagram_retina/P.csv
inst/extdata/test_retinas/40oik5/diagram_retina/T.csv
inst/extdata/test_retinas/40oik5/diagram_retina/datapoints.csv
inst/extdata/test_retinas/40oik5/diagram_retina/falc.txt
inst/extdata/test_retinas/40oik5/diagram_retina/markup.csv
inst/extdata/test_retinas/40oik5/diagram_retina/outline.roi
inst/extdata/test_retinas/40oik5/diagram_retina/xyz.csv
inst/extdata/test_retinas/40oik5/main.r
inst/extdata/test_retinas/8pm223/8pm223.PNG
inst/extdata/test_retinas/8pm223/README.txt
inst/extdata/test_retinas/8pm223/diagram_retina/P.csv
inst/extdata/test_retinas/8pm223/diagram_retina/T.csv
inst/extdata/test_retinas/8pm223/diagram_retina/datapoints.csv
inst/extdata/test_retinas/8pm223/diagram_retina/falc.txt
inst/extdata/test_retinas/8pm223/diagram_retina/markup.csv
inst/extdata/test_retinas/8pm223/diagram_retina/outline.roi
inst/extdata/test_retinas/8pm223/diagram_retina/xyz.csv
inst/extdata/test_retinas/8pm223/main.r
inst/extdata/test_retinas/bjii4t/bjii4t.png
inst/extdata/test_retinas/bjii4t/bjii4t.xlsx
inst/extdata/test_retinas/bjii4t/diagram_retina/P.csv
inst/extdata/test_retinas/bjii4t/diagram_retina/T.csv
inst/extdata/test_retinas/bjii4t/diagram_retina/datapoints.csv
inst/extdata/test_retinas/bjii4t/diagram_retina/falc.txt
inst/extdata/test_retinas/bjii4t/diagram_retina/markup.csv
inst/extdata/test_retinas/bjii4t/diagram_retina/outline.roi
inst/extdata/test_retinas/bjii4t/diagram_retina/xyz.csv
inst/extdata/test_retinas/bjii4t/main.r
inst/extdata/test_retinas/gv3igs/README.txt
inst/extdata/test_retinas/gv3igs/diagram_retina/P.csv
inst/extdata/test_retinas/gv3igs/diagram_retina/T.csv
inst/extdata/test_retinas/gv3igs/diagram_retina/datapoints.csv
inst/extdata/test_retinas/gv3igs/diagram_retina/falc.txt
inst/extdata/test_retinas/gv3igs/diagram_retina/markup.csv
inst/extdata/test_retinas/gv3igs/diagram_retina/outline.roi
inst/extdata/test_retinas/gv3igs/diagram_retina/xyz.csv
inst/extdata/test_retinas/gv3igs/gv3igs.png
inst/extdata/test_retinas/gv3igs/main.r
inst/extdata/test_retinas/jhvbwt/diagram_retina/P.csv
inst/extdata/test_retinas/jhvbwt/diagram_retina/T.csv
inst/extdata/test_retinas/jhvbwt/diagram_retina/datapoints.csv
inst/extdata/test_retinas/jhvbwt/diagram_retina/falc.txt
inst/extdata/test_retinas/jhvbwt/diagram_retina/markup.csv
inst/extdata/test_retinas/jhvbwt/diagram_retina/outline.roi
inst/extdata/test_retinas/jhvbwt/diagram_retina/xyz.csv
inst/extdata/test_retinas/jhvbwt/gv3igs.png
inst/extdata/test_retinas/jhvbwt/main.r inst/extdata/test_retinas/key.md
inst/extdata/test_retinas/raxp91/diagram_retina/P.csv
inst/extdata/test_retinas/raxp91/diagram_retina/T.csv
inst/extdata/test_retinas/raxp91/diagram_retina/datapoints.csv
inst/extdata/test_retinas/raxp91/diagram_retina/falc.txt
inst/extdata/test_retinas/raxp91/diagram_retina/markup.csv
inst/extdata/test_retinas/raxp91/diagram_retina/outline.roi
inst/extdata/test_retinas/raxp91/diagram_retina/xyz.csv
inst/extdata/test_retinas/raxp91/main.r
inst/extdata/test_retinas/raxp91/raxp91.png
inst/extdata/tutorial_data/diagram_retina_screenshot.png
inst/extdata/tutorial_data/site_counts_from_stereology.csv
install.md man/Ntae_381-backslash-t.Rd man/Pmol_752.Rd man/Pmol_753.Rd man/RMat.Rd man/add_contours.Rd man/add_degrees.Rd man/add_legend.Rd man/assemble_markup_file.Rd man/assemble_point_coordinates_file.Rd man/assemble_tear_file.Rd man/cartesian_rotation.Rd man/composite_map.Rd man/compute_longitude_label_location.Rd man/compute_rotation_matrix.Rd man/compute_thin_plate_spline_error.Rd man/coordinate_IJ.Rd man/count_to_rho.Rd man/define_color_breaks_based_on_source.Rd man/define_contour_breaks.Rd man/degrees.Rd man/draw_latitude_markings.Rd man/draw_line_segments.Rd man/dss_retistruct_processing.Rd man/fit_error_histogram.Rd man/fit_plot_azimuthal.Rd man/fit_plots.Rd man/getDssRemoved.Rd man/import_xyz.Rd man/init_square_mat_plot.Rd man/map_composites.Rd man/map_vec_sum.Rd man/mat_from_ret_obj.Rd man/nullify_vals_outside_the_circle.Rd man/optimal_rotation.Rd man/plot_circle_radial_lines.Rd man/plot_degree_label_for_latitudes.Rd man/plot_falciform_process.Rd man/plot_from_MAT.Rd man/plot_longitudinal_labels.Rd man/plot_longitudinal_lines.Rd man/plot_original_xy_locations.Rd man/plot_radial_spokes_and_labels.Rd man/plot_rotation_optimize.Rd man/polynomial_vs_lambda.Rd man/pretty_list_not_including_max.Rd man/range_len.Rd man/reef_fish.Rd man/reflect_across_vertical_line.Rd man/reorder_columns.Rd man/retina.Rd man/retina_object.Rd man/retinal_arclen.Rd man/retinal_phi0.Rd man/retinaplot.Rd man/rotation_optimize.Rd man/run_all_demos.Rd man/semi_ellipse_perimeter.Rd man/sphere_visualize.Rd man/spherical_coords.Rd man/spline.poly.Rd man/ssite_merge.Rd man/tear_markup_plot.Rd man/vector_retina_composite.Rd man/write_labels_at_endpoint_locations.Rd
retina.Rproj
tests/testthat.R tests/testthat/test_add_degrees.R tests/testthat/test_density_functions.R tests/testthat/test_matrix_reflection.R tutorial.md
tutorial_pix/diagram_retina_screenshot.png
tutorial_pix/falc_traced.png
tutorial_pix/finished_tracing.png
tutorial_pix/make_xyz_mapping.png
tutorial_pix/markup_retistruct.png
tutorial_pix/menu_xy_coords.png
tutorial_pix/minx.png
tutorial_pix/newRfile.png
tutorial_pix/polygon_tracing.png
tutorial_pix/retina_plot_output_pmol753.jpg
tutorial_pix/retistruct_gui_open.png
tutorial_pix/roi_select.png
tutorial_pix/save_roi.png
tutorial_pix/select_polygon.png
tutorial_pix/setwd.png
tutorial_pix/site_counts_pic.png
tutorial_pix/source_or_run_line.png
tutorial_pix/xyz_template.png
briancohn/retina documentation built on Aug. 16, 2017, 8:54 a.m.