Dear R helpers,
I've been successfully using Goseq to measure GO and KEGG enrichment
in diverse RNASeq experiment. I was wondering if is there any way to
use different datasets :
* Positional enrichment, for instance cytoband enrichment ....
* Custom datasets ( In GSEA I used to create my own dataset to
search for enrichment in customised networks ... for example special
TF ... and others)
Many thanks in advance
================================================
Computational Biology and Bioinformatics
Institute of Biomedicine of Seville.
Campus University Hospital "Virgen del Rocio".
Avda. Manuel Siurot, s/n
41013 Seville.
Phone: 955923129
================================================
[[alternative HTML version deleted]]
Dear R helpers,
I've been successfully using Goseq to measure GO and KEGG enrichment
in diverse RNASeq experiment. I was wondering if is there any way to
use different datasets :
* Positional enrichment, for instance cytoband enrichment ....
* Custom datasets ( In GSEA I used to create my own dataset to search
for enrichment in customised networks ... for example special TF ...
and others)
Many thanks in advance
================================================
Computational Biology and Bioinformatics
Institute of Biomedicine of Seville.
Campus University Hospital "Virgen del Rocio".
Avda. Manuel Siurot, s/n
41013 Seville.
Phone: 955923129
================================================
**NOTA DE CONFIDENCIALIDAD** Este correo electr?nico, y
...{{dropped:3}}
Dear R helpers,
I've been successfully using Goseq to measure GO and KEGG enrichment
in diverse RNASeq experiment. I was wondering if is there any way to
use different datasets :
* Positional enrichment, for instance cytoband enrichment ....
* Custom datasets ( In GSEA I used to create my own dataset to
search for enrichment in customised networks ... for example special
TF ... and others)
Many thanks in advance
================================================
Computational Biology and Bioinformatics
Institute of Biomedicine of Seville.
Campus University Hospital "Virgen del Rocio".
Avda. Manuel Siurot, s/n
41013 Seville.
Phone: 955923129
================================================
[[alternative HTML version deleted]]
Thanks, But I'm not talking about using GSEA. I mean to use other
datasets (GOseq comes just with GO and KEGG) into GOSeq
Sorry if I didn't explain myself
On 30 Jul 2014, at 05:10, Yang,Jie <jyang32@mdanderson.org> wrote:
> Hi,
>
> You can create the dataset by yourself and do the analysis. But the
format of the dataset should be one of the required. Just create the
dataset, load it and choose it in "run gsea".
>
> ________________________________________
> From: bioconductor-bounces@r-project.org [bioconductor-
bounces@r-project.org] on behalf of Eduardo Andres Leon [eleon-
ibis@us.es]
> Sent: Tuesday, July 29, 2014 10:29 AM
> To: list list
> Subject: [BioC] Goseq datasets
>
> Dear R helpers,
> I've been successfully using Goseq to measure GO and KEGG enrichment
in diverse RNASeq experiment. I was wondering if is there any way to
use different datasets :
> * Positional enrichment, for instance cytoband enrichment
....
> * Custom datasets ( In GSEA I used to create my own dataset
to search for enrichment in customised networks ... for example
special TF ... and others)
>
> Many thanks in advance
>
> ================================================
>
> Computational Biology and Bioinformatics
> Institute of Biomedicine of Seville.
> Campus University Hospital "Virgen del Rocio".
> Avda. Manuel Siurot, s/n
> 41013 Seville.
> Phone: 955923129
>
> ================================================
>
>
>
>
>
>
> [[alternative HTML version deleted]]
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives:
http://news.gmane.org/gmane.science.biology.informatics.conductor
================================================
Computational Biology and Bioinformatics
Institute of Biomedicine of Seville.
Campus University Hospital "Virgen del Rocio".
Avda. Manuel Siurot, s/n
41013 Seville.
Phone: 955923129
================================================
[[alternative HTML version deleted]]