problems downloading data

[SimonCastillo]

Hello, I'm trying to download data as .csv or save it in my google account but in both cases, the following pop-up appears: Failed to upload 'RE_data_spreadsheet'. Please try again.

Any hint/help to solve this?

Thanks

[mdmiller53]

@SimonCastillo thanks for reporting this. we've been looking at this and found the problem is a broken internal link. what dataset(s) were you interested in and what use are you looking for? we're exploring the possibility of a manual process to go from the original format to the spreadsheet but are not sure how long that might take or whether it will be possible.

[SimonCastillo]

Hi
I'm looking for prostate and breast cancer data (somatic mutation and gene expression). I'm a PhD student and I want them for exploratory analysis because I'm writing my thesis proposal. I've tried again and the problem persists. Maybe a way could be to allow to copy data directly from "data table"?? Let me know if there is any hope. Thanks in advance!!

[SimonCastillo]

Or maybe an R package to download and import data directly to R?

[smrgit]

Hi Simon, Perhaps the ISB-CGC <http://www.isb-cgc.org> would be a better source for this type of data. In particular, we have a set of BigQuery tables containing all of the TCGA clinical, biospecimen, and level-3 molecular data. You can find documentation here <http://isb-cancer-genomics-cloud.readthedocs.io/en/latest/sections/progapi/bigqueryGUI/WalkthroughOfGoogleBigQuery.html>, as well as a "Do-it-yourself workshop" here <http://isb-cancer-genomics-cloud.readthedocs.io/en/latest/sections/DIYWorkshop.html> and more complex SQL examples here <http://isb-cancer-genomics-cloud.readthedocs.io/en/latest/sections/QueryOfTheMonthClub.html>. There are also many examples in Python and R in our github repos <https://github.com/isb-cgc>. If you need a Google Cloud Platform (GCP) project in order to use BigQuery, please send a request to request-gcp@isb-cgc.org <gcp-request@isb-cgc.org> with your google identity (we have "cloud credits <http://isb-cancer-genomics-cloud.readthedocs.io/en/latest/sections/outreach/User%20Credit%20Guidelines.html>" which you may request). best, Sheila

…

On Thu, Feb 16, 2017 at 12:45 PM, SimonCastillo ***@***.***> wrote: Hi I'm looking for prostate and breast cancer data (somatic mutation and gene expression). I'm a PhD student and I want them for exploratory analysis because I'm writing my thesis proposal. I've tried again and the problem persists. Maybe a way could be to allow to copy data directly from "data table"?? Let me know if there is any hope. Thanks in advance!! — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#1 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AC7OOfsShU4iGHygS_Va3WfH_HQ4QgBEks5rdLVMgaJpZM4L6MZ1> .

-- ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Sheila M Reynolds, PhD Sr Research Scientist Institute for Systems Biology Sheila.Reynolds@systemsbiology.org ~~~~~~~~~~~~~~~~~~~~~~~~~~~~

[SimonCastillo]

Amazing, thank you very much Sheila!!