lme ->Error in getGroups.data.frame(dataMix, groups)
The basic idea is to create a linear model in R such that
FinH is explained by SoilNkh, dDDSP, dDDSP2, Provenance, Site, Genotype and Block, where SoilNkh, dDDSP and dDDSP2 are continuous covariates, Provenance, Site, Genotype and Block are factors, Site and Provenance are fixed and Genotype and Block are random. Also, Genotype is nested within Provenance and Block within Site.
Since the order the variables go in is of importance, it should be a Anova type-I with the parameters in following order:
FinH~SoilNkh,Site,dDDSP,dDDSP2,Provenance,Site:Provenance,Provenance/Genotype,Site/Block
For the fixed part I am oké with either:
test31 <-lm(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance ,data=d1)
test32 <-aov(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance ,data=d1
When trying to specify the random-part, taking the above text as starting point, trouble starts :)
I feel it should be of the form:
test64 <- lme(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance,
random = ~1|Provenance/Genotype + ~1|Site/Block,data=d1)
but I can't avoid the error
"Error in getGroups.data.frame(dataMix, groups) :
invalid formula for groups"
I am lost for clues, really, so any advice would be great! If any data should be supplied, I'd be happy to provide of course, but can't (yet) figure out how...
Thanks in advance for your time.
r syntax-error lm
asked Nov 24 '18 at 16:00
B.J.H.M. PossenB.J.H.M. Possen
62
add a comment |
The basic idea is to create a linear model in R such that
FinH is explained by SoilNkh, dDDSP, dDDSP2, Provenance, Site, Genotype and Block, where SoilNkh, dDDSP and dDDSP2 are continuous covariates, Provenance, Site, Genotype and Block are factors, Site and Provenance are fixed and Genotype and Block are random. Also, Genotype is nested within Provenance and Block within Site.
Since the order the variables go in is of importance, it should be a Anova type-I with the parameters in following order:
FinH~SoilNkh,Site,dDDSP,dDDSP2,Provenance,Site:Provenance,Provenance/Genotype,Site/Block
For the fixed part I am oké with either:
test31 <-lm(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance ,data=d1)
test32 <-aov(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance ,data=d1
When trying to specify the random-part, taking the above text as starting point, trouble starts :)
I feel it should be of the form:
test64 <- lme(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance,
random = ~1|Provenance/Genotype + ~1|Site/Block,data=d1)
but I can't avoid the error
"Error in getGroups.data.frame(dataMix, groups) :
invalid formula for groups"
I am lost for clues, really, so any advice would be great! If any data should be supplied, I'd be happy to provide of course, but can't (yet) figure out how...
Thanks in advance for your time.
r syntax-error lm
asked Nov 24 '18 at 16:00
B.J.H.M. PossenB.J.H.M. Possen
62
add a comment |
The basic idea is to create a linear model in R such that
FinH is explained by SoilNkh, dDDSP, dDDSP2, Provenance, Site, Genotype and Block, where SoilNkh, dDDSP and dDDSP2 are continuous covariates, Provenance, Site, Genotype and Block are factors, Site and Provenance are fixed and Genotype and Block are random. Also, Genotype is nested within Provenance and Block within Site.
Since the order the variables go in is of importance, it should be a Anova type-I with the parameters in following order:
FinH~SoilNkh,Site,dDDSP,dDDSP2,Provenance,Site:Provenance,Provenance/Genotype,Site/Block
For the fixed part I am oké with either:
test31 <-lm(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance ,data=d1)
test32 <-aov(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance ,data=d1
When trying to specify the random-part, taking the above text as starting point, trouble starts :)
I feel it should be of the form:
test64 <- lme(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance,
random = ~1|Provenance/Genotype + ~1|Site/Block,data=d1)
but I can't avoid the error
"Error in getGroups.data.frame(dataMix, groups) :
invalid formula for groups"
I am lost for clues, really, so any advice would be great! If any data should be supplied, I'd be happy to provide of course, but can't (yet) figure out how...
Thanks in advance for your time.
r syntax-error lm
asked Nov 24 '18 at 16:00
B.J.H.M. PossenB.J.H.M. Possen
62
The basic idea is to create a linear model in R such that
FinH is explained by SoilNkh, dDDSP, dDDSP2, Provenance, Site, Genotype and Block, where SoilNkh, dDDSP and dDDSP2 are continuous covariates, Provenance, Site, Genotype and Block are factors, Site and Provenance are fixed and Genotype and Block are random. Also, Genotype is nested within Provenance and Block within Site.
Since the order the variables go in is of importance, it should be a Anova type-I with the parameters in following order:
FinH~SoilNkh,Site,dDDSP,dDDSP2,Provenance,Site:Provenance,Provenance/Genotype,Site/Block
For the fixed part I am oké with either:
test31 <-lm(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance ,data=d1)
test32 <-aov(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance ,data=d1
When trying to specify the random-part, taking the above text as starting point, trouble starts :)
I feel it should be of the form:
test64 <- lme(FinH~SoilNkh + Site + dDDSP + dDDSP2 + Provenance + Site:Provenance,
random = ~1|Provenance/Genotype + ~1|Site/Block,data=d1)
but I can't avoid the error
"Error in getGroups.data.frame(dataMix, groups) :
invalid formula for groups"
I am lost for clues, really, so any advice would be great! If any data should be supplied, I'd be happy to provide of course, but can't (yet) figure out how...
Thanks in advance for your time.
r syntax-error lm
r syntax-error lm
asked Nov 24 '18 at 16:00
B.J.H.M. PossenB.J.H.M. Possen
62
asked Nov 24 '18 at 16:00
B.J.H.M. PossenB.J.H.M. Possen
62
asked Nov 24 '18 at 16:00
B.J.H.M. PossenB.J.H.M. Possen
62
asked Nov 24 '18 at 16:00
B.J.H.M. PossenB.J.H.M. Possen
62
asked Nov 24 '18 at 16:00
B.J.H.M. PossenB.J.H.M. Possen
62
62
add a comment |
add a comment |
0
active
oldest
votes
Your Answer
StackExchange.ifUsing("editor", function () {
StackExchange.using("externalEditor", function () {
StackExchange.using("snippets", function () {
StackExchange.snippets.init();
});
});
}, "code-snippets");
StackExchange.ready(function() {
var channelOptions = {
tags: "".split(" "),
id: "1"
};
initTagRenderer("".split(" "), "".split(" "), channelOptions);
StackExchange.using("externalEditor", function() {
// Have to fire editor after snippets, if snippets enabled
if (StackExchange.settings.snippets.snippetsEnabled) {
StackExchange.using("snippets", function() {
createEditor();
});
}
else {
createEditor();
}
});
function createEditor() {
StackExchange.prepareEditor({
heartbeatType: 'answer',
autoActivateHeartbeat: false,
convertImagesToLinks: true,
noModals: true,
showLowRepImageUploadWarning: true,
reputationToPostImages: 10,
bindNavPrevention: true,
postfix: "",
imageUploader: {
brandingHtml: "Powered by u003ca class="icon-imgur-white" href="https://imgur.com/"u003eu003c/au003e",
contentPolicyHtml: "User contributions licensed under u003ca href="https://creativecommons.org/licenses/by-sa/3.0/"u003ecc by-sa 3.0 with attribution requiredu003c/au003e u003ca href="https://stackoverflow.com/legal/content-policy"u003e(content policy)u003c/au003e",
allowUrls: true
},
onDemand: true,
discardSelector: ".discard-answer"
,immediatelyShowMarkdownHelp:true
});
}
});
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
StackExchange.ready(
function () {
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fstackoverflow.com%2fquestions%2f53459914%2flme-error-in-getgroups-data-framedatamix-groups%23new-answer', 'question_page');
}
);
Post as a guest
Required, but never shown
0
active
oldest
votes
0
active
oldest
votes
active
oldest
votes
active
oldest
votes
Thanks for contributing an answer to Stack Overflow!
- Please be sure to answer the question. Provide details and share your research!
But avoid …
- Asking for help, clarification, or responding to other answers.
- Making statements based on opinion; back them up with references or personal experience.
To learn more, see our tips on writing great answers.
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
StackExchange.ready(
function () {
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fstackoverflow.com%2fquestions%2f53459914%2flme-error-in-getgroups-data-framedatamix-groups%23new-answer', 'question_page');
}
);
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
