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kimpenn / PIVOT

Platform for Interactive analysis and Visualization Of Transcriptomics data
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error in Gene ontology #19

Open amitpande74 opened 4 years ago

amitpande74 commented 4 years ago

Hi, I am getting this error while doing GO: <simpleError in goana.default(de = flist, universe = bglist, species = species): No annotated genes found in universe> <simpleError in goana.default(de = flist, universe = bglist, species = species): No annotated genes found in universe> <simpleError in goana.default(de = flist, universe = bglist, species = species): No annotated genes found in universe> <simpleError in goana.default(de = flist, universe = bglist, species = species): No annotated genes found in universe> <simpleError in goana.default(de = flist, universe = bglist, species = species): No annotated genes found in universe> Warning: select_() is deprecated as of dplyr 0.7.0. Please use select() instead. This warning is displayed once every 8 hours. Call lifecycle::last_warnings() to see where this warning was generated. Warning: filter_() is deprecated as of dplyr 0.7.0. Please use filter() instead. See vignette('programming') for more help This warning is displayed once every 8 hours. Call lifecycle::last_warnings() to see where this warning was generated. <simpleError in kegga.default(de = flist, universe = bglist, species = species): No genes in universe>

I was trying to perform a GO analysis based on the DE list generated by edgeR. and again I encountered this error

Output created: ../www/rmd_preview.html Cache found Cache found Cache found Warning: Error in curl::curl_fetch_memory: Timeout was reached: [www.ensembl.org:80] Resolving timed out after 10000 milliseconds 87: curl::curl_fetch_memory 86: request_fetch.write_memory 84: request_perform 83: httr::GET 82: bmRequest 81: .listMarts 80: listMarts 79: .useMart 78: biomaRt::useMart 74: observeEventHandler 3: shiny::runApp 2: pivot_main 1: pivot Is this the ensembl port not responding ? Thanks.