User: longsong

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longsong0
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Posts by longsong

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Comment: C: Help: how to use wilcox.test with a SummarizedExperiment object?
... Thank you very much! Your code will be helpful to me. ...
written 28 days ago by longsong0
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Comment: C: Help: how to use wilcox.test with a SummarizedExperiment object?
... Thank you all. Please check my other comment to Gordon Smyth's reply. ...
written 28 days ago by longsong0
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Comment: C: Help: how to use wilcox.test with a SummarizedExperiment object?
... Thanks for your reply. I have some fungi DNA SNPs data. I created a SummarizedExperiment object from it. The assay is used to count non-synonymous SNPs per Gene. I want to find whether there are count differences per Gene between Group A samples and group V samples. From my understanding (I may be ...
written 28 days ago by longsong0
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Help: how to use wilcox.test with a SummarizedExperiment object?
... I have a SummarizedExperiment object (not RangedSummarizedExperiment object): se. The row names are Gene IDs, and columns names are sample names. Samples are divided into 2 groups: A and V groups. The ‘Column’ (sample) data has a filed: group, which has the values of A or V. The object has only ...
summarizedexperiment wilcoxon-mann-whitney test written 4 weeks ago by longsong0 • updated 29 days ago by Gordon Smyth37k
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predictCoding warning message: serious or not?
... I am doing some gene annotation. My code is very similar to the code from https://www.rdocumentation.org/packages/VariantAnnotation/versions/1.18.5/topics/predictCoding as following ``` library(VariantAnnotation) library(BSgenome.Hsapiens.UCSC.hg19) library(TxDb.Hsapiens.UCSC.hg19.knownGene) txdb ...
variantannotation annotation software error written 11 weeks ago by longsong0 • updated 11 weeks ago by shepherl ♦♦ 1.4k
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Comment: C: unable to update packages when I am working on HPC
... A good solution. Thanks! ...
written 11 weeks ago by longsong0
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Comment: C: unable to update packages when I am working on HPC
... I can install the package 'Rsubread' in my own R library path, which in under $HOME. The issue is about updating other related packages, which are under /usr/local/R/3.5.2/lib64/R/library. Anyone ever encountered this issue? ...
written 12 weeks ago by longsong0
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unable to update packages when I am working on HPC
... Hi, Could anyone help me with the following problem? I work on university's HPC (High Performance Computing) as a normal user without admin rights. I tried to install package Rsubread. The installation was successful. But there were some message which said "installation path not writeable, unable ...
software error written 12 weeks ago by longsong0 • updated 12 weeks ago by Gordon Smyth37k

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