GEO Microarray Data Cleaning

GEO Brain Tumor Microarray and RNA-seq Data Cleaning

Re: GEO Microarray Data Cleaning

Postby sbainazeersheikh » Tue Jul 17, 2018 11:01 am

GSE73199- GPL10123

After 10 hours of running the code, it arrived at an error. I've tried cleaning this file multiple times and all the other times, it didn't stop running, even if I left it to run overnight.
Below in the results the dscrt file is missing, but I assume it's because there is an error.
Attachments
GSE73199avg.txt
(1.47 MiB) Downloaded 146 times
GSE73199zscore.txt
(1.16 MiB) Downloaded 155 times
GSE73199aftexcel.txt
(48.26 MiB) Downloaded 150 times
sbainazeersheikh
 
Posts: 7
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Re: GEO Microarray Data Cleaning

Postby JoshK » Wed Jul 18, 2018 2:50 pm

Files for GSE53228-GPL6480
Attachments
GSE532286480zscore.txt
(10.69 MiB) Downloaded 159 times
GSE532286480dscrt.txt
(2.67 MiB) Downloaded 170 times
GSE532286480avg.txt
(6.88 MiB) Downloaded 157 times
GSE532286480aftexcel.txt
(12.01 MiB) Downloaded 156 times
Last edited by JoshK on Wed Jul 18, 2018 3:38 pm, edited 1 time in total.
JoshK
 
Posts: 14
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Re: GEO Microarray Data Cleaning

Postby JoshK » Wed Jul 18, 2018 3:12 pm

Files for GSE49822
Attachments
GSE49822zscore.txt
(11.13 MiB) Downloaded 161 times
GSE49822dscrt.txt
(3.01 MiB) Downloaded 161 times
GSE49822avg.txt
(4.02 MiB) Downloaded 146 times
GSE49822aftexcel.txt
(8.42 MiB) Downloaded 159 times
JoshK
 
Posts: 14
Joined: Thu May 10, 2018 4:22 pm

Re: GEO Microarray Data Cleaning

Postby JoshK » Wed Jul 18, 2018 4:18 pm

Files for GSE42670-GPL6244
Attachments
GSE426706244zscore.txt
(24.21 MiB) Downloaded 158 times
GSE426706244dscrt.txt
(5.63 MiB) Downloaded 171 times
GSE426706244avg.txt
(12.07 MiB) Downloaded 153 times
GSE426706244aftexcel.txt
(20.96 MiB) Downloaded 164 times
JoshK
 
Posts: 14
Joined: Thu May 10, 2018 4:22 pm

Re: GEO Microarray Data Cleaning

Postby JoshK » Wed Jul 18, 2018 5:07 pm

Files for GSE36245
Attachments
GSE36245zscore.txt
(22.36 MiB) Downloaded 157 times
GSE36245dscrt.txt
(5.18 MiB) Downloaded 150 times
GSE36245avg.txt
(7.37 MiB) Downloaded 162 times
GSE36245aftexcel.txt
(16.04 MiB) Downloaded 165 times
JoshK
 
Posts: 14
Joined: Thu May 10, 2018 4:22 pm

Re: GEO Microarray Data Cleaning

Postby JoshK » Wed Jul 18, 2018 5:31 pm

Files for GSE32374
Attachments
GSE32374zscore.txt
(11.97 MiB) Downloaded 174 times
GSE32374dscrt.txt
(2.96 MiB) Downloaded 158 times
GSE32374avg.txt
(8.28 MiB) Downloaded 156 times
GSE32374aftexcel.txt
(16.12 MiB) Downloaded 159 times
JoshK
 
Posts: 14
Joined: Thu May 10, 2018 4:22 pm

Re: GEO Microarray Data Cleaning

Postby JoshK » Wed Jul 18, 2018 6:19 pm

Files for GSE25632
Attachments
GSE256326884zscore.txt
(14.45 MiB) Downloaded 170 times
GSE256326884dscrt.txt
(3.6 MiB) Downloaded 159 times
GSE256326884avg.txt
(7.88 MiB) Downloaded 162 times
GSE256326884aftexcel.txt
(13.09 MiB) Downloaded 144 times
JoshK
 
Posts: 14
Joined: Thu May 10, 2018 4:22 pm

Re: GEO Microarray Data Cleaning

Postby JoshK » Tue Jul 31, 2018 10:59 am

The GSE24558-GPL8736 File took multiple days to finish running and did not yield any files. Additionally, there were no visible error messages in the code.
JoshK
 
Posts: 14
Joined: Thu May 10, 2018 4:22 pm

Re: GEO Microarray Data Cleaning

Postby JoshK » Tue Jul 31, 2018 11:26 am

Files for GSE13041-GPL570
Attachments
GSE13041570zscore.txt
(15.4 MiB) Downloaded 149 times
GSE13041570dscrt.txt
(3.72 MiB) Downloaded 140 times
GSE13041570avg.txt
(6.99 MiB) Downloaded 142 times
GSE13041570aftexcel.txt
(14.24 MiB) Downloaded 136 times
JoshK
 
Posts: 14
Joined: Thu May 10, 2018 4:22 pm

Re: GEO Microarray Data Cleaning

Postby JoshK » Tue Jul 31, 2018 11:33 am

Files for GSE13041-GPL8300
Attachments
GSE130418300zscore.txt
(8.31 MiB) Downloaded 65 times
GSE130418300dscrt.txt
(1.98 MiB) Downloaded 69 times
GSE130418300avg.txt
(3.77 MiB) Downloaded 61 times
GSE130418300aftexcel.txt
(6.22 MiB) Downloaded 72 times
JoshK
 
Posts: 14
Joined: Thu May 10, 2018 4:22 pm

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