Admin: shepherl

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shepherl ♦♦ 180
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Posts by shepherl

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News: New Package Submission Deadline March 31
... The new package submission deadline is March 31. This deadline will serve as the potential to be included in release 3.5 pending review; packages after this deadline will remain in Bioconductor devel pending proper review.   ...
news bioconductor issue tracker written 13 days ago by shepherl ♦♦ 180
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Comment: C: unable to convert data to snpMatrix using read.long
... How did you create the forLD object?  It looks like you have read a file in and saved as forLD; which looks like a data.frame from the above implementation. The read.long function appears to take in a file not a data.frame, so you could try reading in the file directly.  If you have done something d ...
written 4 weeks ago by shepherl ♦♦ 180
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News: Updates to Bioconductor Dockers
... Hello Bioconductor Users:  I would like you all to be aware of some changes to the Bioconductor dockers.  The Bioconductor Core Team has decided to support and maintain the Bioconductor base and core dockers only. We have had some volunteers take over the metabolomics and proteomic dockers so they ...
news bioconductor docker written 5 weeks ago by shepherl ♦♦ 180
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Comment: C: Data analysis in R
... Please load cummeRbund after you installed it:    source("http://bioconductor.org/biocLite.R") biocLite("cummeRbund") library(cummeRbund) cuff_data<-readCufflinks('D:\\AAA-PengZhou\\R-3.0.1\\library\\AAAAAA')   If you are still having trouble, Please also include your sessionInfo()  ...
written 3 months ago by shepherl ♦♦ 180
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Answer: A: problem with makeGRangesListFromFeatureFragments
... You should be able to use unlist and split to get the results you want. If you unlist the grl2 made from myFile2.txt the names on the GRangesList should become the rownames; then split on rowname if you want a GRangesList split by motif name.   ...
written 3 months ago by shepherl ♦♦ 180
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Comment: C: This is post is for testing purposes only.
... Test email  ...
written 3 months ago by shepherl ♦♦ 180
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Comment: C: This is post is for testing purposes only.
... Test Number 2 ...
written 3 months ago by shepherl ♦♦ 180
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Comment: C: This is post is for testing purposes only.
... This is a test comment  ...
written 3 months ago by shepherl ♦♦ 180
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Comment: C: ROPLS error message
... Please try updating to the latest version of R as well as the latest version of the package.  I currently can't reproduce your error when I try using the latest release and latest development versions. If you are still having trouble please provide more detail on how you are loading the package and ...
written 4 months ago by shepherl ♦♦ 180
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Comment: C: UTRs position of genomic loci
... I'm having trouble trying to reproduce the code you provided.  #1.UTRs size,   tx_lens$cds_len would be NULL,  unless in the previous call  tx_lens <- transcriptLengths(txdb, with.utr5_len = F, with.utr3_len = T, with.cds_len=F) the argument with.cds_len would have to be changed to TRUE. #G ...
written 4 months ago by shepherl ♦♦ 180

Latest awards to shepherl

Scholar 11 months ago, created an answer that has been accepted. For A: survcomp package - censor missing
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: survcomp package - censor missing

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