This is so underrated. Hello to the maker of this video, just want to say that your videos are very informative, comprehensive and this is the beat videos on using R for agricultural studies. If u dnt mind could you pls use your voice instead of text to speech option..? May God bless u
Nice video! I am assumed that your two factors are orthogonal? 1. What would be the command for two-way ANOVA if one factor is nested in the other factor? 2. Also, what is the command for more than two factors ANOVA? Thanks so much for a very informative video!
thank you sir . your video is very useful and informative. i learn a lot from it. dear sir kindly can you help that how we can write the significant codes on the bar graph, like a, b ab and c, which standard error.
How to put standard error bars follow below link ruclips.net/video/BXzSwByTsdk/видео.html For lettering on top of error bars i shall make a tutorial on it and will upload soon.
HELP still can't wrap my head around this so i have homework in searching the effect combination of media filling fraction and aerating time ( and i got 2 different media) for treating wastewater, performance of these combination are represented by COD,TSS,NH3N (these are called parameter). My question 1) i don't know how to write the hypotheses; 2) do i need to perform 2way for each every parameters? like media+aerating time = cod then media+aerating time = TSS then media+aerating time = NH3N. hope you understand what i meant.
However, you can follow on blog to get step by step instructions by clicking the link below. This will be helpful to practice R console commands. agroninfotech.blogspot.com/2018/06/two-way-analysis-of-variance-using-r.html
In trt argument just mention the source of variation for which you want the LSD test. If you share your script and data then I can amend the script and will send you back.
Thanks....I got thismessage; means=as.matrix(read.table(textConnection(Input), header = TRUE, row.names = 1)) ................................................................................. Error in read.table(textConnection(Input), header = TRUE, row.names = 1) : more columns than column names, How can I overrcome this problem please? ................................................ My Input is Input samples for Group1 90 samplesfor Group2 105 Samples for Group3 75 samples for Group4 90 best regardes
thank you very much, this is so helpful. but i wanna know how to read the output of tukeyhsd(), can you please simply explain me? i confused how to know which group that have the different mean. thanks
I think you want mean comparison as groups with lettering. If yes then you should use HSD.test() function while setting group=TRUE, instead of tukeyhsd().
Thank you very much for the video! Could you please explain how to add standard deviations to relative columns, and add the legends under the relative columns. I have 17 treatments. I think that is why they are written in plot separated
For Plotting standard error on the bars and customizing legend please go through the Video on "Plotting bargraph with SE and alphabets". I hope this will answer your question. If still have any queries please let me know.
Thanks for your video it's great, but how can I make a two-way anova, when I have different sample sizes? In this case, are there other tests besides Tukey?
You can use two way ANOVA as it does not presume that all samples are the same size. It simply assumes that each group has equal variances and a normal distribution. You may check normality of each group for residuals. I would recommend the Krukal Wallis test.
@@AGRONInfoTech Thanks for the advice I will try it, I followed the process with my data, with ANOVA I have the interaction between two significant factors but the Tukey test has no significant effects. Best regards
You can reduce the speed of the video. In later videos i kept the speed normal. However you can visit blog post on this tutorial. Just click on the link given in description of this video.
i watched a video on RUclips, and it touch me use the command >model1 = lm(Weight.loss ~ Diet * gender, data = my_data) >Anova(model1,type="III") i wonder which is correct for Two way ANOVA ? "*" or "+" could you help me, please. thank you
Levene's test is used for homogeneity of variances between groups. However this test is alternative to Bartlet test. Often used in combined analysis of variances for experiments repeated over space and time. P value less than 5% means test is significant which indicates variances are different and to pool data it require data transformation. For combined anova levene or Bartlet test is used to decide whether to pool data or not on the basis of assumption of homogeneity of variances. I am not sure why you used levene test.
May be you have not copied the above interaction means at 4:48. If even you are unable to get the interaction means to be copied then before anova just change the structure of grouping variable to factor variable by using below command: data$genotype = as.factor(data$genotype) data$gender = as.factor(data$gender) Then use attach(data) to mask its components. Hope this will fix it. If still you stuck with error then send me commands that you have used at agron.infotech@gmail.com
Thank you, it was so helpful. But, may you do a video with interactions groups -Tukey and bar graphs? (with significance) I tried this with groups but it was pretty difficult. Thanks for your video
You can use HSD.test() function with almost same arguments as used in LSD test to get interaction effect with groups showing lettering for each interaction mean. library(agricolae) HSD.test()
R is case sensitive. You typed condition with lower case first letter in aov() function. Type Condition instead of condition. Further do followings before applying aov() command: Polarisation.curve$Condition = as.factor(Polarisation.curve$Condition) Polarisation.curve$NaHCO3_concentration = as.factor(Polarisation.curve$NaHCO3_concentration) I hope this will fix the error. If still stuck with error let me know
You can get letters for TukeyHSD by using below command: # For genotype variable HSD.test(y = activity, trt = genotype, DFerror = aov.res1$df.residual, MSerror = deviance(aov.res1)/aov.res1$df.residual, alpha = 0.05, group = TRUE, console = TRUE)
You can access summarySE() function by installing the Rmisc package. Use the below command to install this package. install.packages('Rmisc', dependencies = TRUE) After installation load Rmisc library using require() function. require(Rmisc) Now you will be able to access summarySE() function.
You just saved me so many headaches on my project 🙏🏾 Great tutorial!
Thanks for your support
Thank you so much! I have been searching for this information and I really appreciate your help. Thanks again.
I am glad that it helped you. Thanks
This is so underrated. Hello to the maker of this video, just want to say that your videos are very informative, comprehensive and this is the beat videos on using R for agricultural studies. If u dnt mind could you pls use your voice instead of text to speech option..? May God bless u
Thank you for the suggestion. I have much improved the voice in the latest videos. Please suggest whether that text to speech voice is ok?
Your video is very very very very very helpful!
Thank you :)
You can visit our blog for more details. agroninfotech.blogspot.com/2018/06/two-way-analysis-of-variance-using-r.html
This was extremely helpful, thank you!
Thank you
Very important Vidio, Many thanks
Most welcome
hell yeah, thanks
Very helpful! Thank you!
Nice video! I am assumed that your two factors are orthogonal?
1. What would be the command for two-way ANOVA if one factor is nested in the other factor?
2. Also, what is the command for more than two factors ANOVA?
Thanks so much for a very informative video!
thanks a lot, its help my research, thankyou
Pretty Helpful, and so fast though.
Quite good, but would you have any suggestion to put the Tukey's result in a nice way like a kabble or a nicer table?? Thanks!
thank you sir . your video is very useful and informative. i learn a lot from it. dear sir kindly can you help that how we can write the significant codes on the bar graph, like a, b ab and c, which standard error.
How to put standard error bars follow below link
ruclips.net/video/BXzSwByTsdk/видео.html
For lettering on top of error bars i shall make a tutorial on it and will upload soon.
HELP
still can't wrap my head around this
so i have homework in searching the effect combination of media filling fraction and aerating time ( and i got 2 different media) for treating wastewater, performance of these combination are represented by COD,TSS,NH3N (these are called parameter). My question 1) i don't know how to write the hypotheses; 2) do i need to perform 2way for each every parameters? like media+aerating time = cod then media+aerating time = TSS then media+aerating time = NH3N.
hope you understand what i meant.
I'm getting the error: Error in eval(predvars, data, env) : object 'activity' not found
Send me the code for which you are getting the error. I think you used 'activity' instead of object 'predvars'
very good
Thanks
Good video, speed is a problem.
Shall keep it in balance in next tutorials
However, you can follow on blog to get step by step instructions by clicking the link below. This will be helpful to practice R console commands.
agroninfotech.blogspot.com/2018/06/two-way-analysis-of-variance-using-r.html
Dear Shilipi, actually, you could adjust the speed by just going to the setting > playback speed > select 0.75 or even lower
How can I get letters group for Tukey HSD??
Thank you in advance
sir thanks for interesting vedio, for all sources of varation, how can get separate LSD value
In trt argument just mention the source of variation for which you want the LSD test. If you share your script and data then I can amend the script and will send you back.
Cool, I like the speed of the video. Not a big fan of the robot voice tho.
Thanks for your support. I have replaced robotic voice with my own in latest video tutorials
Thanks....I got thismessage; means=as.matrix(read.table(textConnection(Input), header = TRUE, row.names = 1))
.................................................................................
Error in read.table(textConnection(Input), header = TRUE, row.names = 1) :
more columns than column names, How can I overrcome this problem please?
................................................
My Input is
Input
samples for Group1 90
samplesfor Group2 105
Samples for Group3 75
samples for Group4 90
best regardes
thank you very much, this is so helpful. but i wanna know how to read the output of tukeyhsd(), can you please simply explain me? i confused how to know which group that have the different mean. thanks
I think you want mean comparison as groups with lettering. If yes then you should use HSD.test() function while setting group=TRUE, instead of tukeyhsd().
Thank you very much for the video! Could you please explain how to add standard deviations to relative columns, and add the legends under the relative columns. I have 17 treatments. I think that is why they are written in plot separated
For Plotting standard error on the bars and customizing legend please go through the Video on "Plotting bargraph with SE and alphabets". I hope this will answer your question. If still have any queries please let me know.
Is there any difference in commands for factorial (two factors) experiments in completely randomized design?
Yes there is difference as you need to add factorB and interaction term factorA:factorB (factorA+factorB+factorA:factorB)
About the anova, why don't u do "anova$ANOVA" ?
Thanks for your video it's great, but how can I make a two-way anova, when I have different sample sizes? In this case, are there other tests besides Tukey?
You can use two way ANOVA as it does not presume that all samples are the same size. It simply assumes that each group has equal variances and a normal distribution.
You may check normality of each group for residuals.
I would recommend the Krukal Wallis test.
@@AGRONInfoTech Thanks for the advice I will try it, I followed the process with my data, with ANOVA I have the interaction between two significant factors but the Tukey test has no significant effects. Best regards
You are most welcome. Wish you good luck.
Very help full video forme. But you are so fast with your pointer therefore, I cant understand where you are pointing with your cursor
You can reduce the speed of the video. In later videos i kept the speed normal. However you can visit blog post on this tutorial. Just click on the link given in description of this video.
i watched a video on RUclips, and it touch me use the command
>model1 = lm(Weight.loss ~ Diet * gender, data = my_data)
>Anova(model1,type="III")
i wonder which is correct for Two way ANOVA ? "*" or "+"
could you help me, please.
thank you
Both are equivalent except the first (*) also provide the interaction term along with main effects.
@@AGRONInfoTech oh i see.
Thank you so much
@@quoctantrinh4655 it's my pleasure
Hi, I coded my categorical variable as dummy (which is numeric) instead of using it as factor and want to use it for ANOVA. Is this okay to do?
For factor variable you need to convert it to factor using below command:
data$dummy = as.factor(data$dummy)
attach(data)
Then apply ANOVA model
@@AGRONInfoTech Ok...thank you.
My pleasure
i ran the levene test and i foundout that p value is less than 5% which mean that tests such as ANOVA can t be done is that true ?
Levene's test is used for homogeneity of variances between groups. However this test is alternative to Bartlet test. Often used in combined analysis of variances for experiments repeated over space and time. P value less than 5% means test is significant which indicates variances are different and to pool data it require data transformation. For combined anova levene or Bartlet test is used to decide whether to pool data or not on the basis of assumption of homogeneity of variances. I am not sure why you used levene test.
I can't get "Means" in my data, what can I do?
May be you have not copied the above interaction means at 4:48.
If even you are unable to get the interaction means to be copied then before anova just change the structure of grouping variable to factor variable by using below command:
data$genotype = as.factor(data$genotype)
data$gender = as.factor(data$gender)
Then use attach(data) to mask its components. Hope this will fix it. If still you stuck with error then send me commands that you have used at agron.infotech@gmail.com
Thank you, it was so helpful. But, may you do a video with interactions groups -Tukey and bar graphs? (with significance) I tried this with groups but it was pretty difficult. Thanks for your video
You can use HSD.test() function with almost same arguments as used in LSD test to get interaction effect with groups showing lettering for each interaction mean.
library(agricolae)
HSD.test()
Helpful but too speedy.
The p-value of my Tukey HSD test didn't appear. What should I do?
Did you follow the instructions in tutorial? Can you send me screen shot of your result with commands in R console at agron.infotech@gmail.com
@@AGRONInfoTech I think it's a problem in my data when I ran this code
anova2
Ok in mstatc p value is not displayed when it is 1 or may be greater then this. When p value is not displayed F value is considered non significant.
Hye sir, why i get error in terms (formula,"error", data= data) when i key in aov
Can you share the str(data) command result?
Also send me aov() command
Str data
$Condition: chr [1:934] "Light" "Light" "Light"
$NaHCO3_concentration: num [1:934] 0 0 0 0 0 0 0 0 0 0
$current_density: num [1:934]
$power_density: num [1:934]
$voltage: [1:934]
Anova2
R is case sensitive. You typed condition with lower case first letter in aov() function. Type Condition instead of condition. Further do followings before applying aov() command:
Polarisation.curve$Condition = as.factor(Polarisation.curve$Condition)
Polarisation.curve$NaHCO3_concentration = as.factor(Polarisation.curve$NaHCO3_concentration)
I hope this will fix the error. If still stuck with error let me know
@@AGRONInfoTech still error in terms (formula, "Error", data = data) : object 'current_density' not found'
Use attach(Polarisation.curve) before aov() command and this will resolve the issue
How can I get letters group for Tukey HSD??
You can get letters for TukeyHSD by using below command:
# For genotype variable
HSD.test(y = activity,
trt = genotype,
DFerror = aov.res1$df.residual,
MSerror = deviance(aov.res1)/aov.res1$df.residual,
alpha = 0.05,
group = TRUE,
console = TRUE)
@@AGRONInfoTech i will try it, thanks a lot man 🤗
You are most welcome
@@AGRONInfoTech Thank you very much, it helped me a lot. I applied the command you told me and it did help me a lot.
Greetings from Mexico
Thank you for your valuable remarks
the last function summaryse it doesn´t exist!
You can access summarySE() function by installing the Rmisc package. Use the below command to install this package.
install.packages('Rmisc', dependencies = TRUE)
After installation load Rmisc library using require() function.
require(Rmisc)
Now you will be able to access summarySE() function.
I think this is a robot
Davis voice used in these videos.
The robo voice is very off putting
Sorry for the voice. I have improved the sound settings in lateral videos.
Let me know whether the voice in recently uploaded videos sounds good or need further improvement ?