User: Thomas Maurel

gravatar for Thomas Maurel
Thomas Maurel690
Reputation:
690
Status:
Trusted
Location:
United Kingdom
Last seen:
3 days, 18 hours ago
Joined:
5 years, 2 months ago
Email:
m*****@ebi.ac.uk

Bioinformatician - Ensembl Production Team

European Bioinformatics Institute (EMBL-EBI)

European Molecular Biology Laboratory

Wellcome Trust Genome Campus

Hinxton

Cambridge CB10 1SD

United Kingdom

Posts by Thomas Maurel

<prev • 110 results • page 1 of 11 • next >
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News: Ensembl 89 has been released
... Dear all The new Ensembl marts for release 89 are now live on www.ensembl.org. If you are using biomaRt, you can change your host to access our most recent data: ensembl_mart_89 <- useEnsembl(biomart=“ensembl")   Ensembl Genes 89    Updated Microarray probes/probesets for all the species   ...
biomart news ensembl ensemblbiomart ensembl89 written 7 weeks ago by Thomas Maurel690
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Comment: C: Inconsistencies in biomart results
... That's great news, thanks a lot for implementing this Mike. Kind Regards, Thomas ...
written 12 weeks ago by Thomas Maurel690
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Comment: C: BiomaRt package not working
... Opps sorry, you are right. I've added "go_accession -> go_id" to the file.  Thanks, Thomas ...
written 3 months ago by Thomas Maurel690
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Comment: C: BiomaRt package not working
... Dear Mike, Thanks a lot for spotting this. I've now updated the following file: ftp://ftp.ensemblgenomes.org/pub/release-35/release_35_biomart_changes.txt Kind Regards, Thomas ...
written 3 months ago by Thomas Maurel690
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Comment: C: biomaRt error when connecting to host
... Dear All, Everything should be back to normal now.  Thanks a lot for your patience. Kind Regards, Thomas ...
written 3 months ago by Thomas Maurel690
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Comment: C: biomaRt error when connecting to host
... Dear all, I am afraid that we are experiencing some issues with our marts since yesterday's maintenance.  We are aiming to fix the issue as soon as possible. Apologies for any inconvenience caused, Kind Regards, Thomas ...
written 3 months ago by Thomas Maurel690
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Answer: A: Retriving Annotation for HTA2.0 using biomRt
... Hello, You can either retrieve all the Affymetrix HTA2.0 mapped to the Ensembl Transcript IDs using "with_affy_hta_2_0" as follow: genes <- getBM(attributes = c("affy_hta_2_0", "ensembl_gene_id","ensembl_transcript_id","external_gene_name","entrezgene", "gene_biotype","transcript_biotype", "go ...
written 3 months ago by Thomas Maurel690
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Answer: A: biomaRt does not return entrezgene id
... Dear all,   Just to let you know that the Ensembl mirrors have now been fixed.   Thanks a lot for your patience. Kind Regards, Thomas ...
written 3 months ago by Thomas Maurel690
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Answer: A: biomaRt does not return entrezgene id
... Dear All, I am afraid that all our Ensembl mirrors have reverted back this afternoon to how they were few days ago. We are looking into this, please use www.ensembl.org in the meantime. I will let you know once everything is working again.   Apologies for any inconvenience caused. Kind Regards ...
written 3 months ago by Thomas Maurel690
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Comment: C: biomaRt does not return entrezgene id
... Hi Mike, I actually never realised this behaviour before. If this can be over ride in the biomaRt code that would be great. To over ride the automatic ensembl mirrors redirect, you can use the following flag in the URL: "?redirect=no". E.g: http://uswest.ensembl.org/index.html?redirect=no This sh ...
written 3 months ago by Thomas Maurel690

Latest awards to Thomas Maurel

Scholar 3 months ago, created an answer that has been accepted. For A: how to use biomaRt with ensembl build 37
Centurion 3 months ago, created 100 posts.
Teacher 15 months ago, created an answer with at least 3 up-votes. For A: biomaRt: no access to Ensembl_75 (GRCh37.p13)
Scholar 15 months ago, created an answer that has been accepted. For A: how to use biomaRt with ensembl build 37
Appreciated 2.1 years ago, created a post with more than 5 votes. For Ensembl release 80 is out!
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: how to use biomaRt with ensembl build 37
Appreciated 2.2 years ago, created a post with more than 5 votes. For Ensembl release 80 is out!
Teacher 2.8 years ago, created an answer with at least 3 up-votes. For A: how to use biomaRt with ensembl build 37
Scholar 2.8 years ago, created an answer that has been accepted. For A: how to use biomaRt with ensembl build 37
Autobiographer 2.8 years ago, has more than 80 characters in the information field of the user's profile.

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