[adegenet-forum] Responder: RV: From genotypes to pollution data

Mon Mar 9 11:33:49 CET 2020

Dear Thibaut,
Thank you for your mail. I have reading about 'multispati', and if I’m not wrong, it does not work with the temporal dimensión. The database “mafragh" contaisn environmental variables in diferent locations but not in a time period.

May I send you and example of my database by email?

Thanks in advance,
Gema

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Gema Fernández-Avilés Calderón
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De: Thibaut Jombart <thibautjombart at gmail.com>
Enviado el: jueves, 5 de marzo de 2020 19:19
Para: Fernando Hernández <fernando.hernandez33 at outlook.com>
CC: adegenet-forum at lists.r-forge.r-project.org; jombart at biomserv.univ-lyon1.fr; Gema Fernández-Avilés Calderón <Gema.FAviles at uclm.es>
Asunto: Re: [adegenet-forum] Responder: RV: From genotypes to pollution data

Dear Gema,

sorry for the late reply. The analysis you describe does exist. It is called 'multispati', and was originally in ade4, now in adespatial:
https://rdrr.io/cran/adespatial/man/multispati.html

A different problem to LDA / DAPC or variants.

Best
Thibaut

--
Dr Thibaut Jombart
Associate Professor in Outbreak Analytics, London School of Hygiene and Tropical Medicine
Senior Lecturer in Genetic Analysis, Imperial College London
UK Public Health Rapid Support Team
President of RECON: repidemicsconsortium.org<http://repidemicsconsortium.org>
https://thibautjombart.netlify.com
Twitter: @TeebzR

On Thu, 5 Mar 2020 at 18:14, Fernando Hernández <fernando.hernandez33 at outlook.com<mailto:fernando.hernandez33 at outlook.com>> wrote:

Dear Gema,

I recommend you the use of other packages to run principal components or discriminant analyses.

If you are interested in some features of DAPC, a linear discriminant analysis probably is more suitable to you.

Saludos

---- Gema Fernández-Avilés Calderón escribió ----
Dear authors,

I was wandering If you had revived this email.
Thanks in advance,
Gema

Dear friends,
I was wandering If you had revived this email.
Thanks in advance,
Gema

[Logotipo UCLM]<http://www.uclm.es/>
Gema Fernández-Avilés Calderón
Profesora Titular de Universidad

Universidad de Castilla-La Mancha
FACULTAD CC. JURÍDICAS Y SOCIALES TO | Cobertizo San Pedro Mártir, SN | 45071 Toledo
Tfno: 925 268 800<tel:+34:925268800> | Ext: 5134<tel:+34:5134> | Gema.FAviles at uclm.es<mailto:Gema.FAviles at uclm.es>
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              [cid:image002.jpg at 01D5F605.D6C2D5E0] <http://orcid.org/0000-0001-5934-1916>
[Resultado de imagen de research gate"]<https://www.researchgate.net/profile/Gema_Fernandez-Aviles>   [Resultado de imagen de google SCHOLAR"] <https://scholar.google.es/citations?user=hpRf4eMAAAAJ&hl=es>

De: Gema Fernández-Avilés Calderón
Enviado el: martes, 25 de febrero de 2020 23:16
Para: adegenet-forum at lists.r-forge.r-project.org<mailto:adegenet-forum at lists.r-forge.r-project.org>; jombart at biomserv.univ-lyon1.fr<mailto:jombart at biomserv.univ-lyon1.fr>
Asunto: From genotypes to pollution data

Dear all,

I would like to carry out sPCA with pollution data. I mean, I have 10 Monitoring station with x,y coordinates that measure 6 pollutans every day for one year. A matrix (365x6) for 10 monitoring stations.

Can I extrapolate your idea to pollution data?
I don’t know how to run data. I don’t know how to create the object in R.

Do you have some idea? I can sent a dataset similar (I’m constructing actually this dataset)

Best and thanks,
Gema

[Logotipo UCLM]<http://www.uclm.es/>
Gema Fernández-Avilés Calderón
Profesora Titular de Universidad

Universidad de Castilla-La Mancha
FACULTAD CC. JURÍDICAS Y SOCIALES TO | Cobertizo San Pedro Mártir, SN | 45071 Toledo
Tfno: 925 268 800<tel:+34:925268800> | Ext: 5134<tel:+34:5134> | Gema.FAviles at uclm.es<mailto:Gema.FAviles at uclm.es>
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