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charles-plessy / CAGEr

Mirror of Bioconductor's CAGEr package repository
https://bioconductor.org/packages/CAGEr
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How to create a CAGEexp? #109

Closed Always-Stude closed 11 months ago

Always-Stude commented 11 months ago

1700006151831

I want to use publicdata to create a CAGEexp,but it is failed. What should I do ? Please help me

This is my code Samples <- FANTOM5mouseSamples[grep("primary cell",FANTOM5mouseSamples[,"type"]),] MEF_Samples <- Samples['21',] inputFiles=MEF_Samples$data_url ce=CAGEexp(inputFiles=inputFiles,inputFilesType="bed" ,sampleLabels=basename(inputFiles))

Always-Stude commented 11 months ago

@charles-plessy

charles-plessy commented 11 months ago

Can you try use MEF_Samples$sample as sample label?

Always-Stude commented 11 months ago

1700040966420 I see,but A new issue has arisen

charles-plessy commented 11 months ago

Which version are you using?

Always-Stude commented 11 months ago

2.0.2

charles-plessy commented 11 months ago

Sorry, but you need at least version 2.8 for loading URLs directly. https://bioconductor.org/packages/release/bioc/news/CAGEr/NEWS

Always-Stude commented 11 months ago

Thank you for your help，I have been resolve the problem after reinstalling the win10 and R-4.3.2.However, I have encountered a new problem.Why am I encountering problems while following the tutorial?Is it because there's an issue with the way the data is being loaded?

------------------ 原始邮件 ------------------ 发件人: "charles-plessy/CAGEr" @.>; 发送时间: 2023年11月15日(星期三) 下午3:47 @.>; @.**@.>; 主题: Re: [charles-plessy/CAGEr] How to create a CAGEexp? (Issue #109)

Can you try use MEF_Samples$sample as sample label?

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charles-plessy commented 11 months ago

The tutorial is being rebuilt regularly, so in principle all examples from it should work. Please open a new issue with the error message and the steps to reproduce it.