Непоследовательная цветовая шкала plot_ly - PullRequest
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Непоследовательная цветовая шкала plot_ly

0 голосов
/ 09 июня 2018

Я сделал две тепловые карты в R, используя plot_ly, но не могу заставить цветовые шкалы отображаться согласованно, даже установив одинаковые zmin и zmax для обоих.Кажется, что это должно быть относительно просто, но нет способа передать zcenter или zmid или лайки, и нет способа указать breaks, чтобы сделать их согласованными.Я что-то упустил или это не может быть сделано в R?

Мой код plot_ly ниже, с результирующими графиками, как вы можете видеть, хотя zmin = -10000 и zmax = 10000 для обоих графиков, 0 соответствуетбелый для первого изображения, но розовый для второго, и я не могу понять, почему это не так.

первое изображение: 

plot_ly(z = data.matrix(tines.pre1[,-1]), type = "heatmap", transpose = TRUE, zauto = FALSE, zmin = -10000, zmax = 10000, colors = c("blue", "white", "red"))

второе изображение:

plot_ly(z = data.matrix(tines.pre2[,-1]), type = "heatmap", transpose = TRUE, zauto = FALSE, zmin = -10000, zmax = 10000, colors = c("blue", "white", "red"))

enter image description here

enter image description here

Вот данные, из-за которых получилось второе изображение: 

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и plot_ly

plot_ly(z = as.matrix(pre2[,-1]), type = "heatmap", transpose = TRUE, zauto = FALSE, zmin = -10000, zmax = 10000, colors = c("blue", "white", "red")

1 Ответ

0 голосов
/ 05 февраля 2019

Это поведение связано с распространением ваших данных.Когда я обмениваю последние два значения вашего набора данных с -10000 и 10000, цвета отображаются правильно.Кажется, это проблема с цветовой интерполяцией, вот пример с использованием "сплайновой" и "линейной" интерполяции:

Редактировать: добавлены альтернативные решения с использованием библиотеки ( d3heatmap ) (не активноподдерживается больше) и библиотека ( heatmaply )

2nd Edit: наконец-то найдено рабочее решение на основе стандартного графика (типа heatmap) с использованием пользовательской цветовой шкалы (см. plot pCustom и последний пример здесь ).Что касается усилий, чтобы попасть туда, я бы сделал тепловую карту. 

library(plotly)

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pLinear <- plot_ly(z = pre2[,-1], type = "heatmap", transpose = TRUE, zauto = FALSE, zmin = -10000, zmax = 10000, colors = colorRamp(colors = c("blue", "white", "red"), interpolate = "linear"))
pLinear

pSpline <- plot_ly(z = pre2[,-1], type = "heatmap", transpose = TRUE, zauto = FALSE, zmin = -10000, zmax = 10000, colors = colorRamp(colors = c("blue", "white", "red"), interpolate = "spline"))
pSpline

library(d3heatmap)
pD3heatmap <- d3heatmap(pre2[,-1], scale = "column", dendrogram = "none", color = c("blue", "white", "red"))
pD3heatmap

library(heatmaply)
pHeatmaply <- heatmaply(pre2[,-1], colors = c("blue", "white", "red"), limits=c(-10000, 10000), dendrogram = "none")
pHeatmaply

library(scales)
colRamp <- colorRampPalette(colors = c("blue", "white", "red"))
vals <- unique(scales::rescale(c(pre2[,-1])))
o <- order(vals, decreasing = FALSE)
cols <- scales::col_numeric(colRamp(length(vals)), domain = NULL)(vals)
colz <- setNames(data.frame(vals[o], cols[o]), NULL)
pCustom <- plot_ly(z = pre2[,-1], colorscale = colz, type = "heatmap", transpose = TRUE, zauto = FALSE, zmin = -10000, zmax = 10000)
pCustom
...