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 2.4 years 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 2.4 years 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 2.4 years 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 2.4 years 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 2.4 years 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 2.4 years 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 2.4 years 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 ...
biomart error ensembl bioconductor ensembl mart written 2.4 years ago by daniel.carbajo0
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Comment: C: biomaRt does not return entrezgene id
... It works properly now!! ...
written 2.5 years 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 2.5 years ago by daniel.carbajo0

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