User: wssdandan2009

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Posts by wssdandan2009

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... Have you resolved this problem now? Thank you~~ ...
written 12 months ago by wssdandan20090
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... Hi Marc and Others, I am trying to use the wonderful package 'AnnotationHub' to retrieve some information, however, I found a little tricky problem-No Uniprot information for some other organisms in AnnotationHub, shown as below: For Homo sapiens: > library(AnnotationHub) > hub <- Annota ...
written 22 months ago by wssdandan20090 • updated 22 months ago by Valerie Obenchain ♦♦ 6.5k
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... Hi James, For the AnnotationHub package, how could I choose the object? For example: > query(hub, c("OrgDb","Solanum lycopersicum")) AnnotationHub with 2 records # snapshotDate(): 2016-07-20  # $dataprovider: NCBI, ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/ #$species: Solanum lycopersicum # \$rdatac ...
written 23 months ago by wssdandan20090
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... Hi James, So strange for the problem. Well, it is OK for your computer, not for mine. And could you help me check whether there is something for my studying object by using 'makeOrgPackageFromNCBI' function ? --- 'Mycoplasma hyopneumoniae 168-L', one very rare species: > spec <- available.sp ...
written 23 months ago by wssdandan20090
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... Hi Marc, As what I replied to James above,  'Drosophila melanogaster' is just an example, which is not my objective organism. As the above, I posted three problems for trying different examples (none of them is my studying object) in my computer, I just want to learn this awesome function for my fu ...
written 23 months ago by wssdandan20090
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... Hi James, Thank you for your warning and answer. This is my first time to use the website Bioconductor, I will note that next time! For my question, first, I know I could find the Drosophila OrgDb by 'AnnotationHub', I just want to try and learn the function 'makeOrgPackageFromNCBI' to see whether ...
written 23 months ago by wssdandan20090
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... Hi James, Thank you very much for your response. I have done as you suggested, I ran my Rstudio as administrator. However, it still occured the same problem:   >source("https://bioconductor.org/biocLite.R") Bioconductor version 3.3 (BiocInstaller 1.22.3), ?biocLite for help   >biocLit ...
written 23 months ago by wssdandan20090
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... Hi Marc and Others, I am trying and learning to use makeOrgPackageFromNCBI() to make organism packages, but always encounter some problems during the process. Therefore, I really hope to get some suggestions and thank you a lot! Please see the three detailed problems below(Maybe the problems are t ...
written 23 months ago by wssdandan20090 • updated 18 months ago by theobroma2210

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