Differential gene expression analysis for GSE62944
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@hamdabinteajmal-10011
Last seen 5.8 years ago

Dear All,

I am trying to do differtial gene expression analysis of Breast Cancer vs. normal patients using data set GSE62944. 
biocLite("AnnotationHub")
library(AnnotationHub)
hub = AnnotationHub()

Gives me error 

downloading from ‘https://annotationhub.bioconductor.org/fetch/34295’
retrieving 1 resource
Downloading: 230 B     
Warning message:
download failed
  hub path: ‘https://annotationhub.bioconductor.org/fetch/34295’
  cache path: ‘C:/LispHome/AppData/.AnnotationHub/34295’
  reason: Forbidden (HTTP 403). 
Error: failed to load 'AnnotationHub' resource
  name: AH28855
  title: RNA-Sequencing and clinical data for 7706 tumor samples from The Cancer Genome Atlas
  reason: error in evaluating the argument 'x' in selecting a method for function 'get': Error in cache(.hub(x)) : 1 resources failed to download

 

Help would be appreciated

R limma cancer tcga bioconductor • 905 views
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sessionInfo()
R version 3.2.3 (2015-12-10)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=English_Ireland.1252  LC_CTYPE=English_Ireland.1252    LC_MONETARY=English_Ireland.1252 LC_NUMERIC=C                    
[5] LC_TIME=English_Ireland.1252    

attached base packages:
[1] parallel  stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] AnnotationHub_2.2.5 Biobase_2.30.0      BiocGenerics_0.16.1

loaded via a namespace (and not attached):
 [1] Rcpp_0.12.4                  IRanges_2.4.8                digest_0.6.9                 mime_0.4                    
 [5] R6_2.1.2                     xtable_1.8-2                 DBI_0.3.1                    stats4_3.2.3                
 [9] RSQLite_1.0.0                BiocInstaller_1.20.1         httr_1.1.0                   curl_0.9.6                  
[13] S4Vectors_0.8.11             tools_3.2.3                  shiny_0.13.2                 httpuv_1.3.3                
[17] AnnotationDbi_1.32.3         htmltools_0.3.5              interactiveDisplayBase_1.8.0

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@valerie-obenchain-4275
Last seen 13 days ago
United States

Was fixed yesterday in C: failed to load 'AnnotationHub' resource.

Valerie

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