User: T Joshi

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T Joshi90
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8 years, 10 months ago
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Posts by T Joshi

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Fisher's method of combining p-values
... Hi, Is there an implementation of Fisher's method of combining p-values available as a part of package ? thanks, lau [[alternative HTML version deleted]] ...
written 8.8 years ago by T Joshi90 • updated 8.8 years ago by Adaikalavan Ramasamy100
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Comment: C: Error using makeGeneRegion/getBM/listFilters, argument 'what' contains an invali
... Hi Steffen, You are right, this version is too old, but I need to use the older version. Any suggestions ? -Tejal On Wed, Nov 11, 2009 at 5:49 PM, wrote: > Hi Tejal, > > Ensembl 46 is to old and there have been some major changes since for > biomaRt to work with it. Would a more rec ...
written 9.1 years ago by T Joshi90
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Error using makeGeneRegion/getBM/listFilters, argument 'what' contains an invalid value: type
... Hi, I have been trying to work with an archived version of ensembl mart, i.e. ensembl_46. The code goes as follow: >library(biomaRt) >#listMarts(archive=TRUE) >mart=useMart("ensembl_mart_46", archive=TRUE) >## listDatasets(mart) >mart=useDataset("mmusculus_gene_ensembl",mart) Checkin ...
biomart written 9.1 years ago by T Joshi90 • updated 9.1 years ago by steffen@stat.Berkeley.EDU600
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maNormScale() equivalent for scale-normalizing AffyBatch objects
... Hi, I would like to know of any scale-normalization functions that are equivalent to maNormScale in the view of its semantics. As far as I know, scale normalization adjusts the range of data, rather than the center of the distribution. The above mentioned function is capable of finding MAD over the ...
normalization written 9.7 years ago by T Joshi90
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biomaRt with multiple databases/datasets?
... Hi, I was wondering if it is possible to use biomaRt package with multiple databases and hence datasets. I want to retrieve GO information using ensembl geneIDs. I use the following : attributes=c("ensembl_gene_id","go_biological_process_id","go_cellular _component_id", "go_biological_process_id", ...
pathways go biomart written 10.0 years ago by T Joshi90
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Comment: C: error with getBM function of biomaRt package
... Hi, Thank you James, Installing RCurl package again solved the problem. Josh On Wed, Dec 3, 2008 at 2:25 PM, James W. MacDonald wrote: > Hi Josh, > > The version of RCurl that you have seems to be really old to me. The version > used by BioC 2.3 is 0.92-0. You might try biocLite("RCur ...
written 10.0 years ago by T Joshi90
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error with getBM function of biomaRt package
... Hi, I was running the example in getBM and got the following error: getBM(attributes=c("affy_hg_u95av2","hgnc_symbol","chromosome_name","b and"),filters="affy_hg_u95av2",values=c("1939_at","1503_at","1454_at") , mart=mart) Error in getBM(attributes = c("affy_hg_u95av2", "hgnc_symbol", "chromosome_n ...
go written 10.0 years ago by T Joshi90 • updated 10.0 years ago by James W. MacDonald48k
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Error in plot.window(...) : need finite 'xlim' values
... Hi, I am plotting some expression values using plot() function as follows: x.chr.locations <- coords.chr[coords.chr.index] y.features <- as.numeric(X[feature.inds,7]) plot(x.chr.locations, y.features, pch=19) which gives me following error : Error in plot.window(...) : need finite 'xlim' v ...
written 10.1 years ago by T Joshi90 • updated 10.1 years ago by Sean Davis21k

Latest awards to T Joshi

Great Question 8.8 years ago, created a question with more than 5,000 views. For Error in plot.window(...) : need finite 'xlim' values
Popular Question 8.8 years ago, created a question with more than 1,000 views. For Error in plot.window(...) : need finite 'xlim' values

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