Abstract

El problema consiste en tomar muestras de categorías que ya obtuvimos al calcular el NDGI. Al entregar una escala y una ROI, sampleRegions automáticamente calcula la cantidad de muestras. Todo se reduce a un tema geográfico. Sólo se necesita que las muestras estén homogéneamente distribuídas en una superficie. Podemos ajustar el cálculo para sacar 5000.

No hay pérdida o informacion sucia pues ésta proviene de nuestro raster NDGI_01.

Podemos extraer muestras como FeatureCollections de rasters, filtrarlas y agruparlas. Podemos llevar la escala del proceso de muestreo con sampleRegions a un mínimo de 400. Sabemos que para Sentinel 100 no está mal.

Se nos pide poder hacerlo a escala 10 y extraer muestras de ésta selección. Creemos que este último enfoque tiene un error.

Índice

1 Primer conjunto de muestras

2 Segundo conjunto de muestras

3 Random Forest

Primer conjunto de muestras

(volver al índice)

Extraemos la imagen satelital Sentinel filtrada por la region de los lagos

mask <- st_read("region_los_lagos.shp", 
        quiet = TRUE) %>% 
        sf_as_ee()

# convertimos el shp en geometria:
region <- mask$geometry()

start <- ee$Date("2019-03-01")
finish <- ee$Date("2020-03-01")
cc <- 20

sentinel1 = ee$ImageCollection('COPERNICUS/S2')$filterDate(start, finish)$filterBounds(region)$
  filter(ee$Filter$lt("CLOUDY_PIXEL_PERCENTAGE", cc))

first <- sentinel1$median()

# definimos los parametros de visualizacion:
vizParams <- list(
  bands = c("B8","B5" , "B3"),
  #  bands = c("B2", "B3"),
  min = 100,
  max = 1000,
  gamma = 2
)
Map$setCenter(lon = -73.079, lat = -42.611, zoom = 6)
Map$addLayer(first, vizParams, "Landsat 8 image")

box_2 <- ee$Geometry$Rectangle(coords = c(-73,-43,-72.2,-42),
                             proj = "EPSG:4326",
                             geodesic = FALSE)
Map$setCenter(lon = -73.079, lat = -42.611, zoom = 7)
Map$addLayer(box_2)

obtenenos informacion de las medias de una imagen

# mean <- first$reduceRegion(
#   reducer = ee$Reducer$mean(),
#   geometry = box_2,
#   scale = 30,
#   bestEffort= TRUE
# )
# print(mean$getInfo())

construimos un raster con NDGI mayor a 0

Lo que aca hacemos es construir una imagen raster con una columnallamada nd con dos categorias para cada pixel: 0 si es rojo, 1 si es verde

getNDGI <- function(image) 
{
  #image$normalizedDifference(c("B3", "B4")) 
   image$normalizedDifference(c("B3", "B4")) > 0.1
}

ndgi_01 <- getNDGI(first)

ndgiParams <- list(palette = c(
  "#d73027", "#f46d43", "#fdae61",
  "#fee08b", "#d9ef8b", "#a6d96a",
  "#66bd63", "#1a9850"
))

Map$setCenter(lon = -73.079, lat = -42.611, zoom = 6)
Map$addLayer(ndgi_01, ndgiParams, "NDGI")

construimos un cuadrado con el que intersectaremos nuestro raster

box_1 <- ee$Geometry$Rectangle(coords = c(-74.83774,-44.06706,-71.58093,-40.23878),
                             proj = "EPSG:4326",
                             geodesic = FALSE)
Map$addLayer(box_1)

intersectamos

sale_2 <- ndgi_01$clip(box_1)
Map$addLayer(sale_2, ndgiParams, "NDGI")

Intersectamos con los límites políticos de los glaciares

mask_0 <- st_read("Lim_glaciares_v2_Simplify.shp",
        quiet = TRUE) %>%
        sf_as_ee()

# convertimos el shp en geometria:
region_0 <- mask_0$geometry()

sale_4 <- sale_2$clip(region_0)
Map$setCenter(lon = -73.079, lat = -42.611, zoom = 7)
Map$addLayer(sale_4, ndgiParams, "NDGI")

MUESTRAS

Extraemos muestras a una escala de 1500 mts con sampleRegions. Serán 813 las muestras extraídas en ésta primera sección:

Que es lo que hace sampleRegions?

ee.Image.sampleRegions

https://developers.google.com/earth-engine/apidocs/ee-image-sampleregions

Convierte cada píxel de una imagen (a una escala determinada) que se cruza con una o más regiones en una Feature y los devuelve como una FeatureCollection. Cada característica de salida tendrá una propiedad por banda de la imagen de entrada, así como cualquier propiedad especificada copiada de la feature de entrada.

Tenga en cuenta que las geometrías se ajustarán a los centros de píxeles.

Extraigamos la informacion de puntos como dataframe:

muestras_in <- sale_4$sampleRegions(
    collection = ee$Feature(region_0),
    scale = 1500,
    tileScale = 16,
    geometries = TRUE
  )

Vamos a filtrarlas al estilo Gee:

muestras_in_gee_rojas = muestras_in$filter(ee$Filter$eq('nd', 0))
muestras_in_gee_verdes = muestras_in$filter(ee$Filter$eq('nd', 1))

Vamos a convertir el FeatureCollection a dataframe, y el proceso tarda.

muestras_in_df <- ee_as_sf(muestras_in)
muestras_in_df <- as.data.frame((muestras_in_df))
muestras_in_df %>%  kbl() %>%
  kable_material(c("striped", "hover"), font_size = 12)%>%
  scroll_box(width = "100%", height = "400px")

nd	geometry
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0	POINT (-71.78662 -41.8862)
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Vamos a extraer ahora solo las muestras interiores rojas al estilo R:

muestras_rojas_in_df <- filter(muestras_in_df,muestras_in_df$nd == 0)
nrow(muestras_rojas_in_df)

## [1] 798

Vamos a extraer ahora solo las muestras interiores verdes:

muestras_verdes_in_df <- filter(muestras_in_df,muestras_in_df$nd == 1)
nrow(muestras_verdes_in_df)

## [1] 15

Las vamos a graficar:

Map$setCenter(-72.7, -43.4, 6)
Map$addLayer(
  eeObject =  muestras_in_gee_rojas,
  visParams = {},
  name = "watersheds"
)

Map$setCenter(-72.7, -43.4, 6)
Map$addLayer(
  eeObject =  muestras_in_gee_verdes,
  visParams = {},
  name = "watersheds"
)

2 Segundo conjunto de muestras

(volver al índice)

creamos un rectangulo al que le vamos a extraer los limites politicos glaciares

box_2 <- ee$Geometry$Rectangle(coords = c(-73,-43,-72.2,-42),
                             proj = "EPSG:4326",
                             geodesic = FALSE)
Map$setCenter(lon = -73.079, lat = -42.611, zoom = 7)
Map$addLayer(box_2)

diff1 <- box_2$difference(region_0, ee$ErrorMargin(1))
Map$addLayer(diff1, list(color = "FFFF00"), "diff1")

intersectaremos nuestro raster ndgi

sale_3 <- sale_2$clip(diff1)
Map$setCenter(lon = -73.079, lat = -42.611, zoom = 7)
Map$addLayer(sale_3, ndgiParams, "NDGI")

extraemos el segundo set de muestras a una escala de 1500 mts

la funcion lo que hace es dividir la superficie por la escala. Asi determina los puntos a muestrear

muestras_out <- sale_3$sampleRegions(
    collection = ee$Feature(diff1),
    scale = 1500,
    tileScale = 16,
    geometries = TRUE
  )

Vamos a filtrarlas al estilo Gee:

muestras_out_gee_rojas = muestras_out$filter(ee$Filter$eq('nd', 0))
muestras_out_gee_verdes = muestras_out$filter(ee$Filter$eq('nd', 1))

Vamos a convertir el FeatureCollection a dataframe, y el proceso tarda.

muestras_out_df <- ee_as_sf(muestras_out)
muestras_out_df <- as.data.frame((muestras_out_df))
muestras_out_df %>%  kbl() %>%
  kable_material(c("striped", "hover"), font_size = 12)%>%
  scroll_box(width = "100%", height = "400px")

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Vamos a extraer ahora solo las muestras exteriores rojas al estilo R:

muestras_rojas_out_df <- filter(muestras_out_df, muestras_out_df$nd == 0)
nrow(muestras_rojas_out_df)

## [1] 553

Vamos a extraer ahora solo las muestras exteriores verdes:

muestras_verdes_out_df <- filter(muestras_out_df,muestras_out_df$nd == 1)
nrow(muestras_verdes_out_df)

## [1] 3750

Las vamos a graficar:

Map$setCenter(-72.7, -43.4, 6)
Map$addLayer(
  eeObject =  muestras_out_gee_rojas,
  visParams = {},
  name = "watersheds"
)

Map$setCenter(-72.7, -43.4, 6)
Map$addLayer(
  eeObject =  muestras_out_gee_verdes,
  visParams = {},
  name = "watersheds"
)

Unimos ambos sets al estilo gee:

union_total <- muestras_in_gee_rojas$merge(muestras_out_gee_verdes)

Unimos ambos dataframes al estilo R:

head(muestras_rojas_in_df,5)

##   nd                    geometry
## 1  0 POINT (-71.77315 -42.38476)
## 2  0 POINT (-71.75967 -42.37129)
## 3  0 POINT (-71.71925 -42.37129)
## 4  0 POINT (-71.75967 -42.35781)
## 5  0  POINT (-71.7462 -42.35781)

muestras_verdes_out_df

muestras <- rbind(muestras_rojas_in_df,muestras_verdes_out_df)
head(muestras,5)

##   nd                    geometry
## 1  0 POINT (-71.77315 -42.38476)
## 2  0 POINT (-71.75967 -42.37129)
## 3  0 POINT (-71.71925 -42.37129)
## 4  0 POINT (-71.75967 -42.35781)
## 5  0  POINT (-71.7462 -42.35781)

3 Aplicamos Random Forest

(volver al índice)

mask <- st_read("region_los_lagos.shp", 
        quiet = TRUE) %>% 
        sf_as_ee()

# convertimos el shp en geometria:
region <- mask$geometry()

start <- ee$Date("2019-03-01")
finish <- ee$Date("2020-03-01")
cc <- 20

sentinel1 = ee$ImageCollection('COPERNICUS/S2')$filterDate(start, finish)$filterBounds(region)$
  filter(ee$Filter$lt("CLOUDY_PIXEL_PERCENTAGE", cc))

first <- sentinel1$median()

# Use these bands for prediction.
bands <- c("B2", "B3", "B4", "B8")

# This property of the table stores the land cover labels.
label <- "nd"

# Overlay the points on the imagery to get training.
training <- first$select(bands)$sampleRegions(
  collection = union_total,
  properties = list(label),
  scale = 10
)

# Train a CART classifier with default parameters.
trained <- ee$Classifier$smileRandomForest(10)$train(training, label, bands)

# Classify the image with the same bands used for training.
classified <- first$select(bands)$classify(trained)

# Viz parameters.
# viz_img <- list(bands = c("B4", "B3", "B2"), max = 0.4)
vizParams <- list(
  bands = c("B8","B5" , "B3"),
  #  bands = c("B2", "B3"),
  min = 100,
  max = 1000,
  gamma = 2
)

viz_class <- list(palette = c("red", "green", "blue"), min = 0, max = 2)

Map$addLayer(first, vizParams, name = "image") +
Map$addLayer(classified, viz_class, name = "classification")

// Get a confusion matrix representing resubstitution accuracy. https://developers.google.com/earth-engine/guides/classification

trainAccuracy = trained$confusionMatrix()
trainAccuracy$getInfo()

## [[1]]
## [1] 792   6
## 
## [[2]]
## [1]   11 3739

trainAccuracy$accuracy()

## EarthEngine Object: Number

Tareas:

1 llevar a geotiff

# img <- ee$Image("LANDSAT/LC08/C01/T1_SR/LC08_038029_20180810")$
# select(c("B4", "B3", "B2"))$
# divide(10000)
# 
# library("stars")
# r <- ee_as_raster(ndgi_01)
# writeRaster(r,'test.tif',options=c('TFW=YES'))

2 Serie completa desde el 2015 cada tres meses para la decima region: Puerto Montt

3 Ver el cambio en forma cuatrimestral, que informe cuando no haya info

4 ver si se genera un cambio aplicando filtros de banda de calidad ademas del filtro de la mediana

5 esperar los shp de los limites oficiales de los glaciares.

prioridades:

1 determinar la superficie glaciar para cada glaciar, para cada geometria glaciar. csv 2 mapas por periodo cuatrimestral. 3 ver como mejorar los parametros visualizacion de la imagen de fondo.

Todo aplicado a la region de los lagos.

otras tareas:

llevar a geotiff estudiar las series de tiempo

Tomar los poligonos glaciares y calcular la superficie (o bien numero de pixeles clasificados como glaciar dentro de cada poligono): se generará una tabla con la superficie glaciar por cuatrimestre.

https://rpubs.com/palominoM/series integrar series de tiempo

otra tarea:

Calcular un indice de vegetacion para las areas agricolas y luego a humedales

# img_02 <- ee_as_raster(
#   image = classified
#  # region = geometry,
#   #via = "drive"
# )

# library(sp)
# library(raster)
# library(rgdal)
# #writeRaster(first, filename="classified.tif")
# 
# writeRaster(img_02,"first.tif", format="GTiff", overwrite=TRUE)

Glaciares en Chile

IV Parte: Sobre la muestra

VE-CC

03-05-2021

Índice

1 Primer conjunto de muestras

2 Segundo conjunto de muestras

3 Random Forest

Primer conjunto de muestras

MUESTRAS

2 Segundo conjunto de muestras

3 Aplicamos Random Forest