User: Tabare Mourot

gravatar for Tabare Mourot
Tabare Mourot100
Reputation:
100
Status:
New User
Location:
Last seen:
13 years, 1 month ago
Joined:
13 years, 6 months ago
Email:
t************@igf.cnrs.fr

Posts by Tabare Mourot

<prev • 10 results • page 1 of 1 • next >
0
votes
1
answer
347
views
1
answer
ensembl connection
... Hi I used to create an object by this command : martMm <- useMart(biomart = "ensembl", dataset="hsapiens_gene_ensembl") But now it dosen't work anymore and i get this error message : unable to open connection unable to resolve 'web50-node4.ebi.ac.uk' Could you explain why it doesn't work ? Thanks ...
written 13.2 years ago by Tabare Mourot100 • updated 13.2 years ago by James W. MacDonald51k
0
votes
0
answers
388
views
0
answers
goCluster plot with heatmap visualization method
... Hi, I still have difficulties to understand how goCluster works. To display one of the identified GO terms i have switched the visualization method to heatmap. But i don't know for which go terms (the selection attribute) it is going to work, for some it is ok but for others it doesn't. Can someone ...
go gocluster written 13.3 years ago by Tabare Mourot100
0
votes
0
answers
476
views
0
answers
goCluster plot interpretation
... Hi, Using goCluster, i obtain a resulting plot. And with clusterVisualHclust visualization method, gocluster highlights different regions but some annotation terms (GO ids) are indicated several times. Why is it not concatenated into one region instead of several contigous regions with the same id? ...
gocluster written 13.3 years ago by Tabare Mourot100
0
votes
0
answers
421
views
0
answers
display goCluster graph with specific go term
... Hi Using goCluster, i can obtain a hierarchical clustering display with a goCluster object and a visualization parameter (clusterVisualHclust). Now i want to recuperate the go ids printed on the right of the graph into a vector in order to display graph with one of these specific GO terms. How can ...
go visualization clustering graph gocluster written 13.3 years ago by Tabare Mourot100
0
votes
0
answers
435
views
0
answers
goCluster colors
... Hi, Concerning the goCluster, what is the meaning of the differents colors in the graphics ? Regards TM -- MOUROT Tabar? Stagiaire Master Pro BioInfo Plateforme transcriptome Institut de G?nomique Fonctionnelle 141, rue de la Cardonille 34094 Montpellier Cedex 5 Tel : +33 (0)4 67 14 29 64 E-mai ...
gocluster written 13.4 years ago by Tabare Mourot100
0
votes
0
answers
338
views
0
answers
goCluster results
... Hi I am using the goCluster package. I create a goCluster object with data from an Annbuilder package i have created. I configure and execute it. then in the significance section, A total of 0 annotation terms have been selected is announced. Is it normal ? Am i missing something ? Regards TM ...
annotation annbuilder gocluster written 13.4 years ago by Tabare Mourot100
0
votes
0
answers
324
views
0
answers
getGene function and size limit
... Hi I am using the getGene function (biomart package) with a vector of ID : ex : getGene(id = refSeqIDs, type = "refseq", mart = martObj) It works with a vector length of 500 but with a length of 5000 it return NULL. Besides the vector i need to use has a length of 18000. Is there any limit for the ...
written 13.4 years ago by Tabare Mourot100
0
votes
1
answer
550
views
1
answers
Comment: C: biomaRt and ensembl tables
... Thank you for your help. I am now using the 1.5.17 biomaRt package to use the webservice mode but using the webservice mode i still have problems with the getHomolog fonction : /> getHomolog(id="NM_000015", from.type="refseq", to.type="refseq", from.mart=martHs, to.mart=martMm) ...
written 13.5 years ago by Tabare Mourot100
0
votes
1
answer
550
views
1
answer
biomaRt and ensembl tables
... Hi I am having some trouble in using the biomart package. I get this error message : /Error in mysqlExecStatement(conn, statement, ...) : RS-DBI driver: (could not run statement: Table 'ensembl_mart_38.hsapiens_gene_ensembl__structure__dm' doesn't exist)/ when executing this command *getBM(attri ...
biomart written 13.5 years ago by Tabare Mourot100 • updated 13.5 years ago by Wolfgang Huber13k
0
votes
1
answer
431
views
1
answer
AnnBuilder package and URLs
... Hi, I am using AnnBuilder package. I don't want to download the base from ncbi each time i make a package. so i have downloaded them and put them on my local disk but now i get an error message when trying to connect to the base : URL /home/tmourot/Work/Scripts/tmp/EG/gene2accession.gz is incorrect ...
annbuilder written 13.6 years ago by Tabare Mourot100 • updated 13.5 years ago by Ting-Yuan Liu FHCRC780

Latest awards to Tabare Mourot

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 126 users visited in the last hour