X-Git-Url: https://git.auder.net/?p=talweg.git;a=blobdiff_plain;f=pkg%2FR%2Fplot.R;h=e4147986d6432dae8733be59cf01a947f44b3cea;hp=b720e9a16fe588f492cb6a77af54516115b94bda;hb=16b1c049a9c402544d7076cacfe6b00a3785b51f;hpb=469529710f56c790ae932b45d13fed2e34bcabf2

diff --git a/pkg/R/plot.R b/pkg/R/plot.R
index b720e9a..e414798 100644
--- a/pkg/R/plot.R
+++ b/pkg/R/plot.R
@@ -6,20 +6,20 @@
 #' @param indices Range of indices (integers or dates)
 #'
 #' @export
-plotCurves <- function(data, indices)
+plotCurves <- function(data, indices=seq_len(data$getSize()))
 {
-	yrange = range( sapply( indices, function(i) {
+	yrange = quantile( range( sapply( indices, function(i) {
 		serie = c(data$getCenteredSerie(i))
 		if (!all(is.na(serie)))
 			range(serie, na.rm=TRUE)
 		c()
-	}) )
+	}) ), probs=c(0.05,0.95) )
 	par(mar=c(4.7,5,1,1), cex.axis=1.5, cex.lab=1.5)
 	for (i in seq_along(indices))
 	{
 		plot(data$getSerie(indices[i]), type="l", ylim=yrange,
 			xlab=ifelse(i==1,"Temps (en heures)",""), ylab=ifelse(i==1,"PM10",""))
-		if (ii < length(indices))
+		if (i < length(indices))
 			par(new=TRUE)
 	}
 }
@@ -36,57 +36,73 @@ plotCurves <- function(data, indices)
 plotPredReal <- function(data, pred, index)
 {
 	horizon = length(pred$getSerie(1))
-	par(mar=c(4.7,5,1,1), cex.axis=1.5, cex.lab=1.5, lwd=3)
 	measure = data$getSerie(pred$getIndexInData(index)+1)[1:horizon]
 	yrange = range( pred$getSerie(index), measure )
+	par(mar=c(4.7,5,1,1), cex.axis=1.5, cex.lab=1.5, lwd=3)
 	plot(measure, type="l", ylim=yrange, xlab="Temps (en heures)", ylab="PM10")
 	par(new=TRUE)
 	plot(pred$getSerie(index), type="l", col="#0000FF", ylim=yrange, xlab="", ylab="")
 }
 
-#' @title Plot filaments
+#' @title Compute filaments
 #'
-#' @description Plot similar days in the past + "past tomorrow", as black as distances are small
+#' @description Get similar days in the past + "past tomorrow", as black as distances are small
 #'
 #' @param data Object as returned by \code{getData}
 #' @param index Index in data
 #' @param limit Number of neighbors to consider
+#' @param plot Should the result be plotted?
 #'
 #' @export
-plotFilaments <- function(data, index, limit=60)
+computeFilaments <- function(data, index, limit=60, plot=TRUE)
 {
 	index = dateIndexToInteger(index, data)
 	ref_serie = data$getCenteredSerie(index)
 	if (any(is.na(ref_serie)))
-		stop("plotFilaments requires a serie without NAs")
+		stop("computeFilaments requires a serie without NAs")
 	L = length(ref_serie)
-	first_day = ifelse(length(data$getCenteredSerie(1)<L), 2, 1)
-	distances = sapply(first_day:(index-1), function(i) {
+
+	# Determine indices of no-NAs days followed by no-NAs tomorrows
+	first_day = ifelse(length(data$getCenteredSerie(1))<L, 2, 1)
+	fdays_indices = c()
+	for (i in first_day:(index-1))
+	{
+		if ( !any(is.na(data$getSerie(i)) | is.na(data$getSerie(i+1))) )
+			fdays_indices = c(fdays_indices, i)
+	}
+
+	distances = sapply(fdays_indices, function(i) {
 		sqrt( sum( (ref_serie - data$getCenteredSerie(i))^2 ) / L )
 	})
-	# HACK to suppress NA effect while keeping indexation
-	distances[is.na(distances)] = max(distances,na.rm=TRUE) + 1
-	indices = sort(distances, index.return=TRUE)$ix[1:min(limit,index-first_day)]
-	yrange = range( ref_serie, sapply( indices, function(i) {
-		index = i - first_day + 1
-		serie = c(data$getCenteredSerie(index), data$getCenteredSerie(index+1))
+	indices = sort(distances, index.return=TRUE)$ix[1:min(limit,length(distances))]
+	yrange = quantile( range( ref_serie, sapply( indices, function(i) {
+		ii = fdays_indices[i]
+		serie = c(data$getCenteredSerie(ii), data$getCenteredSerie(ii+1))
 		if (!all(is.na(serie)))
 			return (range(serie, na.rm=TRUE))
 		c()
-	}) )
+	}) ), probs=c(0.05,0.95) )
 	grays = gray.colors(20, 0.1, 0.9) #TODO: 20 == magic number
-	colors = c(
-		grays[ floor( 20.5 * distances[indices] / (1+max(distances[indices])) ) ], "#FF0000")
-	par(mar=c(4.7,5,1,1), cex.axis=1.5, cex.lab=1.5, lwd=2)
-	for (i in seq_len(length(indices)+1))
+	min_dist = min(distances[indices])
+	max_dist = max(distances[indices])
+	color_values = floor( 19.5 * (distances[indices]-min_dist) / (max_dist-min_dist) ) + 1
+	plot_order = sort(color_values, index.return=TRUE, decreasing=TRUE)$ix
+	colors = c(grays[ color_values[plot_order] ], "#FF0000")
+	if (plot)
 	{
-		ind = ifelse(i<=length(indices), indices[i] - first_day + 1, index)
-		plot(c(data$getCenteredSerie(ind),data$getCenteredSerie(ind+1)),
-			ylim=yrange, type="l", col=colors[i],
-			xlab=ifelse(i==1,"Temps (en heures)",""), ylab=ifelse(i==1,"PM10 centré",""))
-		if (i <= length(indices))
-			par(new=TRUE)
+		par(mar=c(4.7,5,1,1), cex.axis=1.5, cex.lab=1.5, lwd=2)
+		for ( i in seq_len(length(indices)+1) )
+		{
+			ii = ifelse(i<=length(indices), fdays_indices[ indices[plot_order[i]] ], index)
+			plot(c(data$getCenteredSerie(ii),data$getCenteredSerie(ii+1)),
+				ylim=yrange, type="l", col=colors[i],
+				xlab=ifelse(i==1,"Temps (en heures)",""), ylab=ifelse(i==1,"PM10 centré",""))
+			if (i <= length(indices))
+				par(new=TRUE)
+		}
+		abline(v=24, lty=2, col=colors()[56])
 	}
+	list("indices"=c(fdays_indices[ indices[plot_order] ],index), "colors"=colors)
 }
 
 #' @title Plot similarities
@@ -163,9 +179,10 @@ plotError <- function(err, cols=seq_along(err))
 #'
 #' @param data Object return by \code{getData}
 #' @param fiter Optional filter: return TRUE on indices to process
+#' @param plot_bivariate Should the bivariate plot appear?
 #'
 #' @export
-plotFbox <- function(data, filter=function(index) TRUE)
+plotFbox <- function(data, filter=function(index) TRUE, plot_bivariate=TRUE)
 {
 	if (!requireNamespace("rainbow", quietly=TRUE))
 		stop("Functional boxplot requires the rainbow package")
@@ -188,8 +205,78 @@ plotFbox <- function(data, filter=function(index) TRUE)
 	series_matrix = series_matrix[,-nas_indices]
 
 	series_fds = rainbow::fds(seq_len(nrow(series_matrix)), series_matrix)
-	par(mfrow=c(1,2), mar=c(4.7,5,1,1), cex.axis=1.5, cex.lab=1.5)
+	if (plot_bivariate)
+		par(mfrow=c(1,2))
+	par(mar=c(4.7,5,1,1), cex.axis=1.5, cex.lab=1.5)
 	rainbow::fboxplot(series_fds, "functional", "hdr", xlab="Temps (heures)", ylab="PM10",
 		plotlegend=FALSE, lwd=2)
-	rainbow::fboxplot(series_fds, "bivariate", "hdr", plotlegend=FALSE)
+	if (plot_bivariate)
+		rainbow::fboxplot(series_fds, "bivariate", "hdr", plotlegend=FALSE)
+}
+
+#' @title Functional boxplot on filaments
+#'
+#' @description Draw the functional boxplot on filaments obtained by \code{computeFilaments}
+#'
+#' @param data Object return by \code{getData}
+#' @param indices Indices as output by \code{computeFilaments}
+#'
+#' @export
+plotFilamentsBox = function(data, indices, ...)
+{
+	past_neighbs_indices = head(indices,-1)
+	plotFbox(data, function(i) i %in% past_neighbs_indices, plot_bivariate=FALSE)
+	par(new=TRUE)
+	# "Magic" found at http://stackoverflow.com/questions/13842560/get-xlim-from-a-plot-in-r
+	usr <- par("usr")
+	yr <- (usr[4] - usr[3]) / 27
+	plot(data$getSerie(tail(indices,1)), type="l", lwd=2, lty=2,
+		ylim=c(usr[3] + yr, usr[4] - yr), xlab="", ylab="")
+}
+
+#' @title Plot relative conditional variability / absolute variability
+#'
+#' @description Draw the relative conditional variability / absolute variability based on on
+#'   filaments obtained by \code{computeFilaments}
+#'
+#' @param data Object return by \code{getData}
+#' @param indices Indices as output by \code{computeFilaments}
+#'
+#' @export
+plotRelativeVariability = function(data, indices, ...)
+{
+	#plot left / right separated by vertical line brown dotted
+	#median of 3 runs for random length(indices) series
+	ref_series = t( sapply(indices, function(i) {
+		c( data$getSerie(i), data$getSerie(i+1) )
+	}) )
+	ref_var = apply(ref_series, 2, sd)
+
+	# Determine indices of no-NAs days followed by no-NAs tomorrows
+	first_day = ifelse(length(data$getCenteredSerie(1))<length(ref_series[1,]), 2, 1)
+	fdays_indices = c()
+	for (i in first_day:(tail(indices,1)-1))
+	{
+		if ( !any(is.na(data$getSerie(i)) | is.na(data$getSerie(i+1))) )
+			fdays_indices = c(fdays_indices, i)
+	}
+
+	# TODO: 3 == magic number
+	random_var = matrix(nrow=3, ncol=48)
+	for (mc in seq_len(nrow(random_var)))
+	{
+		random_indices = sample(fdays_indices, length(indices))
+		random_series = t( sapply(random_indices, function(i) {
+			c( data$getSerie(i), data$getSerie(i+1) )
+		}) )
+		random_var[mc,] = apply(random_series, 2, sd)
+	}
+	random_var = apply(random_var, 2, median)
+
+	yrange = range(ref_var, random_var)
+	par(mar=c(4.7,5,1,1), cex.axis=1.5, cex.lab=1.5)
+	plot(ref_var, type="l", col=1, lwd=3, ylim=yrange, xlab="Temps (heures)", ylab="Écart-type")
+	par(new=TRUE)
+	plot(random_var, type="l", col=2, lwd=3, ylim=yrange, xlab="", ylab="")
+	abline(v=24, lty=2, col=colors()[56])
 }