Moderator: daniel.vantwisk

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Posts by daniel.vantwisk

<prev • 12 results • page 1 of 2 • next >
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Comment: C: Setting up PLAYRDesign gives error on makeTxDbFromUCSC, error in tableNames
... Your version of R, Bioconductor, and GenomicFeatures appears to be out-of-date.  Updgrading your version of R to the current release and following the instructions to update Bioconductor may solve the issue. ...
written 8 weeks ago by daniel.vantwisk30
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Comment: C: GO.db failure to install
... It seems that this issue is related to your environment and not GO.db or R.  I'm not able to reproduce this error since it involves your computing environemnt, but as per this article: https://support.rstudio.com/hc/en-us/articles/203775903-Fixing-startup-error-where-manipulate-and-rstudio-packages- ...
written 4 months ago by daniel.vantwisk30
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Comment: C: Obsolete REFSEQ annotation
... Could you add the output of sessionInfo() to your question? ...
written 7 months ago by daniel.vantwisk30
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Answer: A: org.Hs.eg.db error same ensembl ID in different genes
... The mapping is not incorrect, but based on older resources from NCBI.  The most recent version of org.Hs.eg.db(3.4.1) was built from resources from NCBI on March 29th 2017.  We do not continuously rebuild our annotation resources so that we can allow researchers who are using these resources to get ...
written 9 months ago by daniel.vantwisk30
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Answer: A: dada2 unavailable for R 3.4.1
... It appears that your version of BiocInstaller is out-of-date.  The current release version of BiocInstaller is v1.26.0.  Try running the following code and try installing the package again: source("http://bioconductor.org/biocLite.R") biocLite("BiocUpgrade") If this doesn't work, this page conta ...
written 10 months ago by daniel.vantwisk30
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Comment: C: Compareequence function is not running
... This appears to be the exact same question as this. ...
written 10 months ago by daniel.vantwisk30
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Answer: A: Possible bug: outdated result from listDatabases()
... Thanks for the notice!  I've made the fix.  The output to listDatabases() now returns the appropriate results in the current release version of KEGGREST(v1.16.1). ...
written 10 months ago by daniel.vantwisk30
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Answer: A: Cytoband information for rice
... The cytoband information you are looking for can be downloaded from the ensembl ftp site using the following URL: ftp://ftp.ensemblgenomes.org/pub/release-36/plants/mysql/oryza_sativa_core_36_89_7/karyotype.txt.gz ...
written 11 months ago by daniel.vantwisk30
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Comment: C: DEsubs problems with Mus musculus
... After encountering a potential error, it would be helpful if you added the output of the function sessionInfo() to your question so we can more easily reproduce the problem. ...
written 12 months ago by daniel.vantwisk30
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Answer: A: IDMapper issue in PSICQUIC
... The IDMapper() function in PSICQUIC is working on the most current release version of the package(v1.14.0).  You are running an older version of the package(v1.6.0).  In fact, it appears that you have multiple packages that are out of date in your session.  To update old Bioconductor packages, run t ...
written 12 months ago by daniel.vantwisk30

Latest awards to daniel.vantwisk

Scholar 11 months ago, created an answer that has been accepted. For A: Possible bug: outdated result from listDatabases()

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