User: daniel.carbajo

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Posts by daniel.carbajo

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Comment: C: biomaRt - Error in getBM: The query to the BioMart webservice returned an invali
... Alright that might be it, my company security policies is probably preventing me from connecting... I will try with the same laptop at home and let you know. But shouldn't the error come out when connecting with useMart, rather than when querying with getBM? ...
written 5 months ago by daniel.carbajo0
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Comment: C: biomaRt - Error in getBM: The query to the BioMart webservice returned an invali
... Still fails... this is my sessionInfo() output, I am going to edit the original question to include it too. > sessionInfo() R version 3.4.0 (2017-04-21) Platform: x86_64-apple-darwin15.6.0 (64-bit) Running under: macOS Sierra 10.12.5 Matrix products: default BLAS: /System/Library/Frameworks/Acc ...
written 5 months ago by daniel.carbajo0
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Comment: C: biomaRt - Error in getBM: The query to the BioMart webservice returned an invali
... I am using biomaRt_2.32.0 and the problem still persists... How did you get a newer version? At https://bioconductor.org/packages/release/bioc/html/biomaRt.html they only have the 2.32.0   ...
written 5 months ago by daniel.carbajo0
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Comment: C: biomaRt - Error in getBM: The query to the BioMart webservice returned an invali
... Does this mean biomaRt is broken and shouldn't be used anymore? The code I posted seemed to be working properly just a month ago... ...
written 5 months ago by daniel.carbajo0
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Comment: C: biomaRt - Error in getBM: The query to the BioMart webservice returned an invali
... Does this mean biomaRt is broken and shouldn't be used anymore? The code I posted seemed to be working properly just a month ago... ...
written 5 months ago by daniel.carbajo0
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Comment: C: biomaRt - Error in getBM: The query to the BioMart webservice returned an invali
...   I get the following when trying to install the package: Warning in install.packages :   package ‘AnnotationHub’ is not available (for R version 3.4.0) Warning in install.packages :   cannot open URL 'https://cran.rstudio.com/bin/macosx/el-capitan/contrib/3.4/PACKAGES.rds': HTTP status was '404 N ...
written 5 months ago by daniel.carbajo0
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Comment: C: biomaRt - Error in getBM: The query to the BioMart webservice returned an invali
... I get the following when trying to install the package: Warning in install.packages :   package ‘AnnotationHub’ is not available (for R version 3.4.0) Warning in install.packages :   cannot open URL 'https://cran.rstudio.com/bin/macosx/el-capitan/contrib/3.4/PACKAGES.rds': HTTP status was '404 Not ...
written 5 months ago by daniel.carbajo0
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biomaRt - Error in getBM: The query to the BioMart webservice returned an invalid result
... Hi, I am using biomaRt to retrieve gene annotation using Ensembl IDs, and the exact same code that worked properly just a month ago, now throws errors. Please check the MWE below: library(biomaRt) ensembl <- useMart("ENSEMBL_MART_ENSEMBL", dataset="hsapiens_gene_ensembl", host="www.ensembl.org ...
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Comment: C: biomaRt does not return entrezgene id
... It works properly now!! ...
written 7 months ago by daniel.carbajo0
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Comment: C: biomaRt does not return entrezgene id
... So I guess the answer here is to just wait right? The code I posted used to work perfectly before... Could I get an estimation of how long will it take for it to be working again? Thanks a lot! ...
written 7 months ago by daniel.carbajo0

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