Error when using getgeodata

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Vitaly Kheyfets on 29 May 2020

Commented: Vitaly Kheyfetson 29 May 2020

Hello,

When I try this example to import GEO series data, I get an error that Matlab is "Unable to find data for the specified GEO Accession Number."

//www.tatmou.com/help/bioinfo/examples/working-with-geo-series-data.html

When I try with the dataset I am hoping to download, I get the exact same error.

However, when I try: geoStruct = getgeodata('GSM1768') .... this seems to work.

Is the issue with GSE series?

谢谢你！

Vitaly

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Tim DeFreitas on 29 May 2020

你能分享确切的命令你running that is giving you the erorr? I am able to retrieve the GSE data in the example:

                               >> gseData = getgeodata('GSE5847',“去整理”,'GSE5847.txt')
                              
                               gseData =
                              
                               struct字段:
                              
                               Header: [1×1 struct]
                              
                               Data: [22283×95 bioma.data.DataMatrix]

Answers (1)

Vitaly Kheyfets on 29 May 2020

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//www.tatmou.com/matlabcentral/answers/536991-error-when-using-getgeodata#answer_442447

Hi Tim,

That's strange. This is what I'm getting:

Thanks,

Vitaly

                             >> gseData = getgeodata('GSE5847',“去整理”,'GSE5847.txt')
                            
                             Errorusing getgeodata (line 156)
                            
                             Unableto find data for the specified GEO Accession Number. Recently
                            
                             submitteddata sets might not be available for immediate download.

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Vitaly Kheyfets on 29 May 2020

Yup, I'm using 2018b. Thanks!!!

Vitaly

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