Re: [R] Loops (run the same function per different columns)
Hi Arun,
Thanks a lot for your script. Ill work on it tomorrow.
Cheers
On 24/04/2014, at 11:54 AM, arun kirshna [via R]
ml-node+s789695n4689356...@n4.nabble.com wrote:
HI,
I guess you got an output like this using my script:
##Please use ?dput() to show the example data.
FA - structure(list(Sample = c(L1 Control, L1 Control, L1 Control,
BBM Control, BBM Control, BBM Control, L1 Ash, L1 Ash,
L1 Ash, BBM Ash, BBM Ash, BBM Ash), C14.0 = c(0.456509192,
0.513989684, 0.555894496, 0.418392781, 0.405826292, 0.398633968,
0.504528078, 0.548667997, 0.499237645, 0.380582244, 0.395617943,
0.389027115), C15.0 = c(0.469562687, 0.527958026, 0.502389699,
0.385119329, 0.368564514, 0.391851493, 0.479125577, 0.517533922,
0.490619858, 0.380051535, 0.384498216, 0.370815474), C15.1 = c(0.774909216,
0.732083085, 0.706407924, 1.318261983, 1.114889958, 1.238411437,
0.793236101, 0.632962545, 0.74858627, 0.996870831, 0.963780759,
0.923329859)), .Names = c(Sample, C14.0, C15.0, C15.1
), class = data.frame, row.names = c(NA, -12L))
library(gvlma)
y - names(FA)[-1]
y
#[1] C14.0 C15.0 C15.1
lst1 - setNames(vector(list, length(y)),y)
for(i in y){
lst1[[i]] - gvlma(lm(get(i)~Sample,data=FA))
lst1}
lst1[[1]]
#
#Call:
#lm(formula = get(y[i]) ~ Sample, data = FA)
#---
But, you wanted to show each of the list output as in gvlmaFA.
gvlmaFA - gvlma(lm(C14.0~Sample,data=FA))
In my previous script, I didn't name the list. Here, by setting the names as
in y, it could be easier. I guess you wanted to reflect that in the model
formula as well.
lst2 - setNames(vector(list, length(y)), y)
for(names in y){
lst2[[names]] - eval(bquote(gvlma(lm(.(names1)~ Sample, data=FA)),
list(names1=as.name(names
lst2}
identical(gvlmaFA, lst2[[1]])
#[1] TRUE
A.K.
Hi Arun,
Your script works but it does not do what I was after. To be a bit more
specific, this the table FA in which Im working on ( but the original one
has 34 fatty acids instead of 3: C14.0, C15.0, and C15.1).
Sample
C14:0
C15:0
C15:1
L1 Control
0.456509192
0.469562687
0.774909216
L1 Control
0.513989684
0.527958026
0.732083085
L1 Control
0.555894496
0.502389699
0.706407924
BBM Control
0.418392781
0.385119329
1.318261983
BBM Control
0.405826292
0.368564514
1.114889958
BBM Control
0.398633968
0.391851493
1.238411437
L1 Ash
0.504528078
0.479125577
0.793236101
L1 Ash
0.548667997
0.517533922
0.632962545
L1 Ash
0.499237645
0.490619858
0.74858627
BBM Ash
0.380582244
0.380051535
0.996870831
BBM Ash
0.395617943
0.384498216
0.963780759
BBM Ash
0.389027115
0.370815474
0.923329859
I just want to run the following script but with C15.0, C15.1 and the other
32 so I can quickly scroll up and down to see who does not meet the
assumptions.
FA.ml=lm(C14.0~Sample,data=FA)
gvlmaFA-gvlma(FA.ml)
gvlmaFA
This is the result when I run the script
Call:
lm(formula = C14.0 ~ Sample, data = FA)
Coefficients:
(Intercept) SampleBBM Control SampleL1 Ash SampleL1 Control
0.388410.019210.129070.12039
ASSESSMENT OF THE LINEAR MODEL ASSUMPTIONS
USING THE GLOBAL TEST ON 4 DEGREES-OF-FREEDOM:
Level of Significance = 0.05
Call:
gvlma(x = FA.ml)
Value p-value Decision
Global Stat4.757e+00 0.31312Assumptions acceptable.
Skewness 1.944e-02 0.88911Assumptions acceptable.
Kurtosis 1.462e-01 0.70219Assumptions acceptable.
Link Function 3.682e-16 1.0Assumptions acceptable.
Heteroscedasticity 4.592e+00 0.03213 Assumptions NOT satisfied!
I really appreciate if you can help me with this issue. This would be really
useful for me since I have large tables of data.
Cheers
On Monday, April 21, 2014 9:19 AM, arun [hidden email] wrote:
Hi,
Using the example data from library(gvlma)
library(gvlma)
data(CarMileageData)
CarMileageNew - CarMileageData[,c(5,6,3)]
lst1 - list()
y - c(NumGallons, NumDaysBetw)
for(i in seq_along(y)){
lst1[[i]] - gvlma(lm(get(y[i])~MilesLastFill,data=CarMileageNew))
lst1}
pdf(gvlmaplot.pdf)
lapply(lst1,plot)
dev.off()
You could also use ?lapply().
A.K.
Hi
I have a spread sheet with a column Samples (column1) and then 34 more
columns with different concentrations of fatty acids per sample. Im trying to
run the same function 34
Re: [R] Loops (run the same function per different columns)
Hi Arun,
Your script works but it does not do what I was after. To be a bit more
specific, this the table FA in which Im working on ( but the original one
has 34 fatty acids instead of 3: C14.0, C15.0, and C15.1).
SampleC14:0C15:0C15:1
L1 Control0.4565091920.4695626870.774909216
L1 Control0.5139896840.5279580260.732083085
L1 Control0.5558944960.5023896990.706407924
BBM Control0.4183927810.3851193291.318261983
BBM Control0.4058262920.3685645141.114889958
BBM Control0.3986339680.3918514931.238411437
L1 Ash0.5045280780.4791255770.793236101
L1 Ash0.5486679970.5175339220.632962545
L1 Ash0.4992376450.4906198580.74858627
BBM Ash0.3805822440.3800515350.996870831
BBM Ash0.3956179430.3844982160.963780759
BBM Ash0.3890271150.3708154740.923329859
I just want to run the following script but with C15.0, C15.1 and the other
32 so I can quickly scroll up and down to see who does not meet the
assumptions.
FA.ml=lm(C14.0~Sample,data=FA)
gvlmaFA-gvlma(FA.ml)
gvlmaFA
This is the result when I run the script
Call:
lm(formula = C14.0 ~ Sample, data = FA)
Coefficients:
(Intercept) SampleBBM Control SampleL1 Ash SampleL1 Control
0.388410.019210.129070.12039
ASSESSMENT OF THE LINEAR MODEL ASSUMPTIONS
USING THE GLOBAL TEST ON 4 DEGREES-OF-FREEDOM:
Level of Significance = 0.05
Call:
gvlma(x = FA.ml)
Value p-value Decision
Global Stat4.757e+00 0.31312Assumptions acceptable.
Skewness 1.944e-02 0.88911Assumptions acceptable.
Kurtosis 1.462e-01 0.70219Assumptions acceptable.
Link Function 3.682e-16 1.0Assumptions acceptable.
Heteroscedasticity 4.592e+00 0.03213 Assumptions NOT satisfied!
I really appreciate if you can help me with this issue. This would be really
useful for me since I have large tables of data.
Cheers
From: arun kirshna [via R] ml-node+s789695n4689190...@n4.nabble.com
Date: Mon, 21 Apr 2014 06:29:10 -0700 (PDT)
To: Carlos carlosalvarez...@hotmail.com
Subject: Re: Loops (run the same function per different columns)
Hi,
Using the example data from library(gvlma)
library(gvlma)
data(CarMileageData)
CarMileageNew - CarMileageData[,c(5,6,3)]
lst1 - list()
y - c(NumGallons, NumDaysBetw)
for(i in seq_along(y)){
lst1[[i]] - gvlma(lm(get(y[i])~MilesLastFill,data=CarMileageNew))
lst1}
pdf(gvlmaplot.pdf)
lapply(lst1,plot)
dev.off()
You could also use ?lapply().
A.K.
Hi
I have a spread sheet with a column Samples (column1) and then 34 more
columns with different concentrations of fatty acids per sample. Im trying
to run the same function 34 times. In this case (the first of 34), I have a
fatty acid called C14.0 (column 2). I'm a newbie with R so I spent the last
4 days looking for a way of doing it (without running the same function 34
times with a different fatty acid each time). I saw that people do similar
things with loops but I cannot get them to work.
I have tried the script below but it does not work.
y-c(C14.0,C15.0,C16.0)
for (i in y) {
FA.ml=lm(i~Sample,data=FA)
gvlmaFA-gvlma(FA.ml)
gvlmaFA
}
I really appreciate if someone can give me a hand with that. I know would
have been finished if I had typed the 34 fatty acids but I want to learn how
to do it with loops.
Cheers
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Re: [R] Loops (run the same function per different columns)
Thank you Arun for your quick answer.
Ill try it and ill let you know.
Cheers
On 21/04/2014, at 11:30 PM, arun kirshna [via R]
ml-node+s789695n4689190...@n4.nabble.com wrote:
Hi,
Using the example data from library(gvlma)
library(gvlma)
data(CarMileageData)
CarMileageNew - CarMileageData[,c(5,6,3)]
lst1 - list()
y - c(NumGallons, NumDaysBetw)
for(i in seq_along(y)){
lst1[[i]] - gvlma(lm(get(y[i])~MilesLastFill,data=CarMileageNew))
lst1}
pdf(gvlmaplot.pdf)
lapply(lst1,plot)
dev.off()
You could also use ?lapply().
A.K.
Hi
I have a spread sheet with a column Samples (column1) and then 34 more
columns with different concentrations of fatty acids per sample. Im trying to
run the same function 34 times. In this case (the first of 34), I have a
fatty acid called C14.0 (column 2). I'm a newbie with R so I spent the last 4
days looking for a way of doing it (without running the same function 34
times with a different fatty acid each time). I saw that people do similar
things with loops but I cannot get them to work.
I have tried the script below but it does not work.
y-c(C14.0,C15.0,C16.0)
for (i in y) {
FA.ml=lm(i~Sample,data=FA)
gvlmaFA-gvlma(FA.ml)
gvlmaFA
}
I really appreciate if someone can give me a hand with that. I know would
have been finished if I had typed the 34 fatty acids but I want to learn how
to do it with loops.
Cheers
__
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