User: wssdandan2009

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Posts by wssdandan2009

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Answer: A: Can XCMS search Metlin using MS/MS spectra and provide a similarity score?
... Have you resolved this problem now? Thank you~~ ...
written 4 months ago by wssdandan20090
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Why No Uniprot information for some other organisms in AnnotationHub?
... 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 ...
annotationhub hub written 14 months ago by wssdandan20090 • updated 14 months ago by Valerie Obenchain ♦♦ 6.4k
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Comment: C: problem with makeOrgPackageFromNCBI when making an annotation package
... 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 15 months ago by wssdandan20090
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Comment: C: problem with makeOrgPackageFromNCBI when making an annotation package
... 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 15 months ago by wssdandan20090
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Comment: C: problem with makeOrgPackageFromNCBI when making an annotation package
... 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 15 months ago by wssdandan20090
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Comment: C: problem with makeOrgPackageFromNCBI when making an annotation package
... 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 15 months ago by wssdandan20090
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Answer: A: problem with makeOrgPackageFromNCBI when making an annotation package
... 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 15 months ago by wssdandan20090
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problem with makeOrgPackageFromNCBI when making an annotation package
... 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 ...
annotationforge R bioconductor written 15 months ago by wssdandan20090 • updated 10 months ago by theobroma2210

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