User: Arman Shahrisa

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Posts by Arman Shahrisa

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Comment: C: How can I find the location of a gene based on cytogenetic bands (e.g. 7q31.2)?
... Exactly! Thank you very much. ...
written 11 weeks ago by Arman Shahrisa10
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How can I find the location of a gene based on cytogenetic bands (e.g. 7q31.2)?
... How can I find the location of a gene based on cytogenetic bands (e.g. 7q31.2)? Is there any package(s) that lets me convert the gene symbol to cytogenetic bands? ...
bioconductor cytogenetics written 11 weeks ago by Arman Shahrisa10 • updated 11 weeks ago by Martin Morgan ♦♦ 21k
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How can I mention separate creator and correspondence in a package?
... I'm developing a Bioconductor package in which I'm a creator, author, and maintainer. But someone else is the corresponding author. Is the following code correct in the package description?   Author: c(person(first = "A****", last = "S*******",                             email = "s*************** ...
package description written 7 months ago by Arman Shahrisa10 • updated 7 months ago by Martin Morgan ♦♦ 21k
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Comment: C: I'm developing a package. How can I specify a dependent package to be installed
... Hi, My package requires "xlsx" package to export data as excel files. Even with java runtime environment installed, R returns an error during the installation of "xlsx" package. I googled it and found "install.packages("xlsxjars", INSTALL_opts = "--no-multiarch")" in a forum. It fixed the problem f ...
written 7 months ago by Arman Shahrisa10
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I'm developing a package. How can I specify a dependent package to be installed with an option?
... I'm developing a package. How can I specify a dependent package to be installed with an option? For example, inside description file: Depends: cgdsr, xlsx, gplots, RColorBrewer, rafalib, Biobase, genefilter, xlsxjars I manually install the "xlsxjars" package as "install.packages("xlsxjars", INSTA ...
package dependency written 7 months ago by Arman Shahrisa10 • updated 7 months ago by Hervé Pagès ♦♦ 13k
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Comment: C: How to create automated cbind in a for loop
... I fixed the problem. It was a "E" instead of "e". I appreciate for your time. ...
written 23 months ago by Arman Shahrisa10
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How to create automated cbind in a for loop
... How can I create an automated cbind() to use with for loop? This is the part that returns error expression <- cbind(expression, rrM.ProfileData) The following is my function genes is a character vector containing names of the desired genes. cancer is also a character vector string containin ...
loop matix written 23 months ago by Arman Shahrisa10 • updated 23 months ago by Martin Morgan ♦♦ 21k
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Comment: C: Database download ends with error for AnnotationHub
... The command "hubCache(hub)" returns the following error: Error in hubCache(hub) : error in evaluating the argument 'x' in selecting a method for function 'hubCache': Error: object 'hub' not found also > traceback() 1: hubCache(hub) So I wasn't able to remove the files by command. Instead, ...
written 2.6 years ago by Arman Shahrisa10
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Answer: A: Database download ends with error for AnnotationHub
... I don't have stable HTTPS connection. I performed your commands but every time it finishes with the same error. Is there anyway to manually download databases and put them in corresponding folder? By the way, I'm using R 3.1.3 and I can't upgrade it due to limitations of class to strictly use R 3.1 ...
written 2.6 years ago by Arman Shahrisa10
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Answer: A: Database download ends with error for AnnotationHub
... Any help would be appreciated! I think the problem is with database. Does anybody knows whether databases for older versions of AnnotationHub have been removed? ...
written 2.6 years ago by Arman Shahrisa10

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