forest plot three shapes in R -
i using "pimp forest plot" make nice graphs. http://www.r-bloggers.com/pimping-your-forest-plot/
the tutorial explains how make nice forest plot, combing data 2 countries have @ subgroup effects. each country has own distinctive shape on graph eg sweden diamond... subgroup effects in countries easy pick out.
i'm having problem when trying merge 3 dfs (for 3 countries) though. instead of retaining separate shapes each country in each subgroup (see graph when combining 2 countries), when put 3 countries shapes gender circular, shapes age square , on. instead should there circle, diamond , square represent effects of gender/age in each country.
does know i'm doing wrong here? i've been retracing steps , adding 1 df @ time can @ least try see i'm doing wrong: it's not coming me.
i've copied dfs "pimp forest plot" here: credit these graphs max gordon. i've made fake third df called "finland" sake of example here.
sweden1 coef lower upper males vs female 0.04088551 0.03483956 0.04693145 85 vs 65 years -0.05515741 -0.06508088 -0.04523394 charlsons medium vs low -0.03833060 -0.04727946 -0.02938173 denmark1 coef lower upper males vs female 0.03462842 0.003494374 0.065762462 85 vs 65 years -0.03682791 -0.083367305 0.009711488 charlsons medium vs low -0.04335537 -0.090336663 0.003625929 finland1 coef lower upper males vs female 0.061 0.043 0.087 85 vs 65 years -0.080 -0.120 -0.020 charlsons medium vs low -0.050 -0.075 -0.025 to make forest plot 2 countries: use max gordon's code referenced website:
library(forestplot) forestplot(mean=cbind(sweden1[,"coef"], denmark1[,"coef"]), lower=cbind(sweden1[,"lower"], denmark1[,"lower"]), upper=cbind(sweden1[,"upper"], denmark1[,"upper"]), labeltext=rownames(sweden), legend=c("sweden", "denmark"), legend.pos=list(x=0.8,y=.4), legend.gp = gpar(col="#aaaaaa"), legend.r=unit(.1, "snpc"), clip=c(-.2, .2), xticks=c(-.2, -.1, .0, .1, .2), boxsize=0.3, col=fpcolors(box=c("blue", "darkred")), # set different functions confintnormalfn=c("fpdrawdiamondci", "fpdrawcircleci"), xlab="eq-5d index", new_page=true) i use code add in finland, see how shapes not stay true groups.
forestplot(mean=cbind(sweden1[,"coef"], denmark1[,"coef"],finland1[,"coef"]), lower=cbind(sweden1[,"lower"], denmark1[,"lower"],finland1[,"lower"]), upper=cbind(sweden1[,"upper"], denmark1[,"upper"],finland1[,"upper"]), labeltext=rownames(sweden1), legend=c("sweden", "denmark", "finland1"), # added clip argument of # danish ci way out therer #clip=c(-.2, .2), # getting ticks auto-generate # nightmare - better # specify them on own # xticks=c(-.2, -.1, .0, .1, .2), boxsize=0.3, col=fpcolors(box=c("blue", "darkred", "green")), confintnormalfn=c("fpdrawcircleci", "fpdrawnormalci","fpdrawdiamondci"), xlab="eq-5d index", new_page=true) thanks in advance.
edit
sweden1 <- structure(c(0.0408855062954068, -0.0551574080806885, -0.0383305964199184, 0.0348395599810297, -0.0650808763059716, -0.0472794647337126, 0.046931452609784, -0.0452339398554054, -0.0293817281061242), .dim = c(3l, 3l), .dimnames = list(c("males vs female", "85 vs 65 years", "charlsons medium vs low"), c("coef", "lower", "upper"))) denmark1 <- structure(c(0.0346284183072541, -0.0368279085760325, -0.0433553672510346, 0.00349437418972517, -0.0833673052667752, -0.0903366633240568, 0.065762462424783, 0.00971148811471034, 0.00362592882198759), .dim = c(3l, 3l), .dimnames = list(c("males vs female", "85 vs 65 years", "charlsons medium vs low"), c("coef", "lower", "upper"))) finland1 <- structure(c(0.061, -0.08, -0.05, 0.043, -0.12, -0.075, 0.087, -0.02, -0.025), .dim = c(3l, 3l), .dimnames = list(c("males vs female", "85 vs 65 years", "charlsons medium vs low"), c("coef", "lower", "upper")))
it hard deduce intention of different drawing functions in square structure , therefore need supply function square matrix, in case 3x3 matrix. not sure wisest design choice part, rather simple fix:
sweden1 <- structure(c(0.0408855062954068, -0.0551574080806885, -0.0383305964199184, 0.0348395599810297, -0.0650808763059716, -0.0472794647337126, 0.046931452609784, -0.0452339398554054, -0.0293817281061242), .dim = c(3l, 3l), .dimnames = list(c("males vs female", "85 vs 65 years", "charlsons medium vs low"), c("coef", "lower", "upper"))) denmark1 <- structure(c(0.0346284183072541, -0.0368279085760325, -0.0433553672510346, 0.00349437418972517, -0.0833673052667752, -0.0903366633240568, 0.065762462424783, 0.00971148811471034, 0.00362592882198759), .dim = c(3l, 3l), .dimnames = list(c("males vs female", "85 vs 65 years", "charlsons medium vs low"), c("coef", "lower", "upper"))) finland1 <- structure(c(0.061, -0.08, -0.05, 0.043, -0.12, -0.075, 0.087, -0.02, -0.025), .dim = c(3l, 3l), .dimnames = list(c("males vs female", "85 vs 65 years", "charlsons medium vs low"), c("coef", "lower", "upper"))) forestplot(mean=cbind(sweden1[,"coef"], denmark1[,"coef"],finland1[,"coef"]), lower=cbind(sweden1[,"lower"], denmark1[,"lower"],finland1[,"lower"]), upper=cbind(sweden1[,"upper"], denmark1[,"upper"],finland1[,"upper"]), labeltext=rownames(sweden1), legend=c("sweden", "denmark", "finland1"), boxsize=0.1, col=fpcolors(box=c("kblue", "darkred", "darkgreen")), fn.ci_norm=matrix(c("fpdrawcircleci", "fpdrawnormalci","fpdrawdiamondci"), nrow = 3, ncol=3, byrow=t), xlab="eq-5d index", new_page=true) produces graph:
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