User: wang peter

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wang peter2.0k
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Posts by wang peter

<prev • 198 results • page 2 of 20 • next >
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the
... i try to output the quality files, but the perCycleQuality picture is vague please see the attachment i tried different R versions library(ShortRead); fastqfile="T2-1.fastq"; qa <- qa(dirPath=".", pattern=fastqfile, type="fastq"); report(qa, dest="qcReport", type="html"); -- shan gao R ...
written 4.1 years ago by wang peter2.0k • updated 4.1 years ago by Martin Morgan ♦♦ 20k
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how to filter downloading SRA data
... hello all: if i want to download all the small RNA data from the NCBI SRA data and set the filtering criteria: 50bp length, human, how to do? thank you in advance -- shan gao Room 231(Dr.Fei lab) Boyce Thompson Institute for Plant Research Cornell University Tower Road, Ithaca, NY 14853-1801 Offi ...
written 4.1 years ago by wang peter2.0k
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Comment: C: how to get cel file by getGEO
... thank you very much i am working with these coding shan On Tue, Sep 17, 2013 at 3:42 AM, Simona Rossi wrote: > Hi Shan, > > try this one: > > library(GEOquery) > getGEOSuppFiles("GSEXXXX") > > > untar("GSEXXXX/GSEXXXX_RAW.tar", exdir="data") > cels <- list.fi ...
written 4.2 years ago by wang peter2.0k
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how to get cel file by getGEO
... HELLO all gset <- getGEO("GSE15471") how to get the cel file?? thank you -- shan gao Room 231(Dr.Fei lab) Boyce Thompson Institute for Plant Research Cornell University Tower Road, Ithaca, NY 14853-1801 Office phone: 1-607-254-1267(day) Official email:sg839@cornell.edu Facebook:http://www.facebo ...
written 4.2 years ago by wang peter2.0k • updated 4.2 years ago by Simona Rossi30
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how to calculate logFC in limma
... this is output of limma ## ID logFC AveExpr t P.Value adj.P.Val B ## 9491 39400_at -0.9997850 5.634004 -5.727329 1.482860e-05 0.1034544 2.4458354 > eset["39400 ...
written 4.2 years ago by wang peter2.0k • updated 4.2 years ago by Federico Lasa80
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Comment: C: how to convert ExpressionSet to AffyBatch
... thank you but plotMA can not realize some functions of MAplot. that is why i need the converter On Fri, Sep 6, 2013 at 5:03 PM, James W. MacDonald wrote: > library(limma) > ?plotMA > > Best, > > Jim > > > > > On Friday, September 06, 2013 4:35:01 PM, Wang Peter ...
written 4.2 years ago by wang peter2.0k
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how to convert ExpressionSet to AffyBatch
... the MAplot function only accept AffyBatch object but i have a data in ExpressionSet variable how to convert ExpressionSet to AffyBatch thank you very much -- shan gao Room 231(Dr.Fei lab) Boyce Thompson Institute for Plant Research Cornell University Tower Road, Ithaca, NY 14853-1801 Office ...
convert written 4.2 years ago by wang peter2.0k • updated 4.2 years ago by James W. MacDonald45k
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Comment: C: how to do the time series analysis?
... thank you very much i will look at it On Tue, Aug 20, 2013 at 4:56 PM, Wuming Gong wrote: > Hi Wang, > > There are a lot of methods for clustering temporal microarray. You may > read this paper for a review: > http://biochem218.stanford.edu/Projects%202010/Kuenzel%202010.pdf > ...
written 4.3 years ago by wang peter2.0k
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how to do the time series analysis?
... i have 5 time points of expression data, i would like to do some clustering or other time series analysis. thank you -- shan gao Room 231(Dr.Fei lab) Boyce Thompson Institute for Plant Research Cornell University Tower Road, Ithaca, NY 14853-1801 Office phone: 1-607-254-1267(day) Official email:sg8 ...
clustering written 4.3 years ago by wang peter2.0k • updated 4.3 years ago by Wuming Gong10
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Comment: C: limma for homemade microarray - question on NAs and multiple probes for one gene
... sorry, i have a question. why did you do log(M) did you only extract matched probe signals? shan On Thu, Jul 25, 2013 at 7:21 AM, Gordon K Smyth wrote: > Dear Zhengyu, > > > On Mon, 22 Jul 2013, zhengyu jiang wrote: > > Hi Gordon, >> >> Sorry to bother you again. ...
written 4.3 years ago by wang peter2.0k

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