Satellite Image Time Series Analysis for Earth Observation Data Cubes


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Documentation for package ‘sits’ version 1.5.3

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C H I P S misc

sits-package sits

-- C --

cerrado_2classes Samples of classes Cerrado and Pasture

-- H --

hist.probs_cube histogram of prob cubes
hist.raster_cube histogram of data cubes
hist.sits Histogram
hist.uncertainty_cube Histogram uncertainty cubes

-- I --

impute_linear Replace NA values by linear interpolation

-- P --

plot Plot time series and data cubes
plot.class_cube Plot classified images
plot.class_vector_cube Plot Segments
plot.dem_cube Plot DEM cubes
plot.geo_distances Make a kernel density plot of samples distances.
plot.patterns Plot patterns that describe classes
plot.predicted Plot time series predictions
plot.probs_cube Plot probability cubes
plot.probs_vector_cube Plot probability vector cubes
plot.raster_cube Plot RGB data cubes
plot.rfor_model Plot Random Forest model
plot.sar_cube Plot SAR data cubes
plot.sits Plot time series and data cubes
plot.sits_accuracy Plot confusion matrix
plot.sits_cluster Plot a dendrogram cluster
plot.som_clean_samples Plot SOM samples evaluated
plot.som_evaluate_cluster Plot confusion between clusters
plot.som_map Plot a SOM map
plot.torch_model Plot Torch (deep learning) model
plot.uncertainty_cube Plot uncertainty cubes
plot.uncertainty_vector_cube Plot uncertainty vector cubes
plot.variance_cube Plot variance cubes
plot.vector_cube Plot RGB vector data cubes
plot.xgb_model Plot XGB model
point_mt_6bands A time series sample with data from 2000 to 2016

-- S --

samples_l8_rondonia_2bands Samples of Amazon tropical forest biome for deforestation analysis
samples_modis_ndvi Samples of nine classes for the state of Mato Grosso
sits sits
sits_accuracy Assess classification accuracy
sits_accuracy.class_cube Assess classification accuracy
sits_accuracy.class_vector_cube Assess classification accuracy
sits_accuracy.default Assess classification accuracy
sits_accuracy.derived_cube Assess classification accuracy
sits_accuracy.raster_cube Assess classification accuracy
sits_accuracy.sits Assess classification accuracy
sits_accuracy.tbl_df Assess classification accuracy
sits_add_base_cube Add base maps to a time series data cube
sits_apply Apply a function on a set of time series
sits_apply.default Apply a function on a set of time series
sits_apply.derived_cube Apply a function on a set of time series
sits_apply.raster_cube Apply a function on a set of time series
sits_apply.sits Apply a function on a set of time series
sits_as_sf Return a sits_tibble or raster_cube as an sf object.
sits_as_sf.default Return a sits_tibble or raster_cube as an sf object.
sits_as_sf.raster_cube Return a sits_tibble or raster_cube as an sf object.
sits_as_sf.sits Return a sits_tibble or raster_cube as an sf object.
sits_as_sf.vector_cube Return a sits_tibble or raster_cube as an sf object.
sits_as_stars Convert a data cube into a stars object
sits_as_terra Convert a data cube into a Spatial Raster object from terra
sits_as_terra.class_cube Convert a data cube into a Spatial Raster object from terra
sits_as_terra.probs_cube Convert a data cube into a Spatial Raster object from terra
sits_as_terra.raster_cube Convert a data cube into a Spatial Raster object from terra
sits_as_terra.uncertainty_cube Convert a data cube into a Spatial Raster object from terra
sits_as_terra.variance_cube Convert a data cube into a Spatial Raster object from terra
sits_bands Get the names of the bands
sits_bands.default Get the names of the bands
sits_bands.patterns Get the names of the bands
sits_bands.raster_cube Get the names of the bands
sits_bands.sits Get the names of the bands
sits_bands.sits_model Get the names of the bands
sits_bands<- Get the names of the bands
sits_bands<-.default Get the names of the bands
sits_bands<-.raster_cube Get the names of the bands
sits_bands<-.sits Get the names of the bands
sits_bbox Get the bounding box of the data
sits_bbox.default Get the bounding box of the data
sits_bbox.raster_cube Get the bounding box of the data
sits_bbox.sits Get the bounding box of the data
sits_bbox.tbl_df Get the bounding box of the data
sits_classify Classify time series or data cubes
sits_classify.default Classify time series or data cubes
sits_classify.derived_cube Classify time series or data cubes
sits_classify.raster_cube Classify a regular raster cube
sits_classify.segs_cube Classify a segmented data cube
sits_classify.sits Classify a set of time series
sits_classify.tbl_df Classify time series or data cubes
sits_classify.vector_cube Classify a segmented data cube
sits_clean Cleans a classified map using a local window
sits_clean.class_cube Cleans a classified map using a local window
sits_clean.default Cleans a classified map using a local window
sits_clean.derived_cube Cleans a classified map using a local window
sits_clean.raster_cube Cleans a classified map using a local window
sits_cluster_clean Removes labels that are minority in each cluster.
sits_cluster_dendro Find clusters in time series samples
sits_cluster_frequency Show label frequency in each cluster produced by dendrogram analysis
sits_colors Function to retrieve sits color table
sits_colors_qgis Function to save color table as QML style for data cube
sits_colors_reset Function to reset sits color table
sits_colors_set Function to set sits color table
sits_colors_show Function to show colors in SITS
sits_combine_predictions Estimate ensemble prediction based on list of probs cubes
sits_combine_predictions.average Estimate ensemble prediction based on list of probs cubes
sits_combine_predictions.default Estimate ensemble prediction based on list of probs cubes
sits_combine_predictions.uncertainty Estimate ensemble prediction based on list of probs cubes
sits_confidence_sampling Suggest high confidence samples to increase the training set.
sits_config Configure parameters for sits package
sits_config_show Show current sits configuration
sits_config_user_file Create a user configuration file.
sits_cube Create data cubes from image collections
sits_cube.local_cube Create sits cubes from cubes in flat files in a local
sits_cube.results_cube Create a results cube from local files
sits_cube.stac_cube Create data cubes from image collections accessible by STAC
sits_cube.vector_cube Create a vector cube from local files
sits_cube_copy Copy the images of a cube to a local directory
sits_factory_function Create a closure for calling functions with and without data
sits_filter Filter time series with smoothing filter
sits_formula_linear Define a linear formula for classification models
sits_formula_logref Define a loglinear formula for classification models
sits_geo_dist Compute the minimum distances among samples and prediction points.
sits_get_class Get values from classified maps
sits_get_class.csv Get values from classified maps
sits_get_class.data.frame Get values from classified maps
sits_get_class.default Get values from classified maps
sits_get_class.sf Get values from classified maps
sits_get_class.shp Get values from classified maps
sits_get_class.sits Get values from classified maps
sits_get_data Get time series from data cubes and cloud services
sits_get_data.csv Get time series using CSV files
sits_get_data.data.frame Get time series using sits objects
sits_get_data.default Get time series from data cubes and cloud services
sits_get_data.sf Get time series using sf objects
sits_get_data.shp Get time series using shapefiles
sits_get_data.sits Get time series using sits objects
sits_get_probs Get values from probability maps
sits_get_probs.csv Get values from probability maps
sits_get_probs.data.frame Get values from probability maps
sits_get_probs.default Get values from probability maps
sits_get_probs.sf Get values from probability maps
sits_get_probs.shp Get values from probability maps
sits_get_probs.sits Get values from probability maps
sits_impute Replace NA values in time series with imputation function
sits_kfold_validate Cross-validate time series samples
sits_labels Get labels associated to a data set
sits_labels.default Get labels associated to a data set
sits_labels.derived_cube Get labels associated to a data set
sits_labels.derived_vector_cube Get labels associated to a data set
sits_labels.patterns Get labels associated to a data set
sits_labels.raster_cube Get labels associated to a data set
sits_labels.sits Get labels associated to a data set
sits_labels.sits_model Get labels associated to a data set
sits_labels<- Change the labels of a set of time series
sits_labels<-.class_cube Change the labels of a set of time series
sits_labels<-.default Change the labels of a set of time series
sits_labels<-.probs_cube Change the labels of a set of time series
sits_labels<-.sits Change the labels of a set of time series
sits_labels_summary Inform label distribution of a set of time series
sits_labels_summary.sits Inform label distribution of a set of time series
sits_label_classification Build a labelled image from a probability cube
sits_label_classification.default Build a labelled image from a probability cube
sits_label_classification.derived_cube Build a labelled image from a probability cube
sits_label_classification.probs_cube Build a labelled image from a probability cube
sits_label_classification.probs_vector_cube Build a labelled image from a probability cube
sits_label_classification.raster_cube Build a labelled image from a probability cube
sits_lightgbm Train light gradient boosting model
sits_lighttae Train a model using Lightweight Temporal Self-Attention Encoder
sits_list_collections List the cloud collections supported by sits
sits_merge Merge two data sets (time series or cubes)
sits_merge.default Merge two data sets (time series or cubes)
sits_merge.raster_cube Merge two data sets (time series or cubes)
sits_merge.sits Merge two data sets (time series or cubes)
sits_mgrs_to_roi Convert MGRS tile information to ROI in WGS84
sits_mixture_model Multiple endmember spectral mixture analysis
sits_mixture_model.default Multiple endmember spectral mixture analysis
sits_mixture_model.derived_cube Multiple endmember spectral mixture analysis
sits_mixture_model.raster_cube Multiple endmember spectral mixture analysis
sits_mixture_model.sits Multiple endmember spectral mixture analysis
sits_mixture_model.tbl_df Multiple endmember spectral mixture analysis
sits_mlp Train multi-layer perceptron models using torch
sits_model_export Export classification models
sits_model_export.sits_model Export classification models
sits_mosaic Mosaic classified cubes
sits_patterns Find temporal patterns associated to a set of time series
sits_predictors Obtain predictors for time series samples
sits_pred_features Obtain numerical values of predictors for time series samples
sits_pred_normalize Normalize predictor values
sits_pred_references Obtain categorical id and predictor labels for time series samples
sits_pred_sample Obtain a fraction of the predictors data frame
sits_reclassify Reclassify a classified cube
sits_reclassify.class_cube Reclassify a classified cube
sits_reclassify.default Reclassify a classified cube
sits_reduce Reduces a cube or samples from a summarization function
sits_reduce.raster_cube Reduces a cube or samples from a summarization function
sits_reduce.sits Reduces a cube or samples from a summarization function
sits_reduce_imbalance Reduce imbalance in a set of samples
sits_regularize Build a regular data cube from an irregular one
sits_regularize.combined_cube Build a regular data cube from an irregular one
sits_regularize.default Build a regular data cube from an irregular one
sits_regularize.dem_cube Build a regular data cube from an irregular one
sits_regularize.derived_cube Build a regular data cube from an irregular one
sits_regularize.ogh_cube Build a regular data cube from an irregular one
sits_regularize.rainfall_cube Build a regular data cube from an irregular one
sits_regularize.raster_cube Build a regular data cube from an irregular one
sits_regularize.sar_cube Build a regular data cube from an irregular one
sits_resnet Train ResNet classification models
sits_rfor Train random forest models
sits_roi_to_mgrs Given a ROI, find MGRS tiles intersecting it.
sits_roi_to_tiles Find tiles of a given ROI and Grid System
sits_run_examples Informs if sits examples should run
sits_run_tests Informs if sits tests should run
sits_sample Sample a percentage of a time series
sits_sampling_design Allocation of sample size to strata
sits_segment Segment an image
sits_select Filter a data set (tibble or cube) for bands, tiles, and dates
sits_select.default Filter a data set (tibble or cube) for bands, tiles, and dates
sits_select.raster_cube Filter a data set (tibble or cube) for bands, tiles, and dates
sits_select.sits Filter a data set (tibble or cube) for bands, tiles, and dates
sits_sgolay Filter time series with Savitzky-Golay filter
sits_slic Segment an image using SLIC
sits_smooth Smooth probability cubes with spatial predictors
sits_smooth.default Smooth probability cubes with spatial predictors
sits_smooth.derived_cube Smooth probability cubes with spatial predictors
sits_smooth.probs_cube Smooth probability cubes with spatial predictors
sits_smooth.probs_vector_cube Smooth probability cubes with spatial predictors
sits_smooth.raster_cube Smooth probability cubes with spatial predictors
sits_som_clean_samples Cleans the samples based on SOM map information
sits_som_evaluate_cluster Evaluate cluster
sits_som_map Build a SOM for quality analysis of time series samples
sits_som_remove_samples Evaluate cluster
sits_stats Obtain statistics for all sample bands
sits_stratified_sampling Allocation of sample size to strata
sits_svm Train support vector machine models
sits_tae Train a model using Temporal Self-Attention Encoder
sits_tempcnn Train temporal convolutional neural network models
sits_texture Apply a set of texture measures on a data cube.
sits_texture.default Apply a set of texture measures on a data cube.
sits_texture.derived_cube Apply a set of texture measures on a data cube.
sits_texture.raster_cube Apply a set of texture measures on a data cube.
sits_tiles_to_roi Convert MGRS tile information to ROI in WGS84
sits_timeline Get timeline of a cube or a set of time series
sits_timeline.default Get timeline of a cube or a set of time series
sits_timeline.derived_cube Get timeline of a cube or a set of time series
sits_timeline.raster_cube Get timeline of a cube or a set of time series
sits_timeline.sits Get timeline of a cube or a set of time series
sits_timeline.sits_model Get timeline of a cube or a set of time series
sits_timeline.tbl_df Get timeline of a cube or a set of time series
sits_timeseries_to_csv Export a a full sits tibble to the CSV format
sits_to_csv Export a sits tibble metadata to the CSV format
sits_to_csv.default Export a sits tibble metadata to the CSV format
sits_to_csv.sits Export a sits tibble metadata to the CSV format
sits_to_csv.tbl_df Export a sits tibble metadata to the CSV format
sits_to_xlsx Save accuracy assessments as Excel files
sits_to_xlsx.list Save accuracy assessments as Excel files
sits_to_xlsx.sits_accuracy Save accuracy assessments as Excel files
sits_train Train classification models
sits_tuning Tuning machine learning models hyper-parameters
sits_tuning_hparams Tuning machine learning models hyper-parameters
sits_uncertainty Estimate classification uncertainty based on probs cube
sits_uncertainty.default Estimate classification uncertainty based on probs cube
sits_uncertainty.probs_cube Estimate classification uncertainty based on probs cube
sits_uncertainty.probs_vector_cube Estimate classification uncertainty based on probs cube
sits_uncertainty.raster_cube Estimate classification uncertainty based on probs cube
sits_uncertainty_sampling Suggest samples for enhancing classification accuracy
sits_validate Validate time series samples
sits_variance Calculate the variance of a probability cube
sits_variance.default Calculate the variance of a probability cube
sits_variance.derived_cube Calculate the variance of a probability cube
sits_variance.probs_cube Calculate the variance of a probability cube
sits_variance.raster_cube Calculate the variance of a probability cube
sits_view View data cubes and samples in leaflet
sits_view.class_cube View data cubes and samples in leaflet
sits_view.class_vector_cube View data cubes and samples in leaflet
sits_view.data.frame View data cubes and samples in leaflet
sits_view.default View data cubes and samples in leaflet
sits_view.probs_cube View data cubes and samples in leaflet
sits_view.raster_cube View data cubes and samples in leaflet
sits_view.sits View data cubes and samples in leaflet
sits_view.som_map View data cubes and samples in leaflet
sits_view.uncertainty_cube View data cubes and samples in leaflet
sits_view.vector_cube View data cubes and samples in leaflet
sits_whittaker Filter time series with whittaker filter
sits_xgboost Train extreme gradient boosting models
summary.class_cube Summarize data cubes
summary.raster_cube Summarize data cubes
summary.sits Summarize sits
summary.sits_accuracy Summarize accuracy matrix for training data
summary.sits_area_accuracy Summarize accuracy matrix for area data
summary.variance_cube Summarize variance cubes

-- misc --

`sits_labels<-` Change the labels of a set of time series