LAML Data

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Sarah Mason

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Apr 29, 2020, 11:54:44 AM4/29/20

to gd...@broadinstitute.org

Hello. I tried using the email forum, but did not appear to post. I have issues with the LAML methylation data from FireBrowse in R. It unzips as .csv and I cannot change it from char to any other data type after packing it into a dataframe. Previous posts state files a .tsv, should the file only be .tsv? My download is .csv.

Any tips are welcome. I looked in the tutorial on site, but the toolset appears unavailable.

Sarah Mason

Gdac-users

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Apr 29, 2020, 1:27:01 PM4/29/20

to Gdac-users, Sarah Mason, gdac

Hi Sarah,

Can you please be more specific? How are you acquiring the data - the web API, a command-line tool, programming libraries (fbget, FireBrowseR), or by clicking through the website? What link is returning CSV for you?

For the tutorial, I apologize that our confluence site moved, and unfortunately the paths changed.

firehose_get is now here.

Best,

David

David Heiman

Senior Software Engineer

GDAN Processing Genome Data Analysis Center

CPTAC Proteogenomic Data Analysis Center

The Broad Institute of MIT and Harvard

415 Main Street

Cambridge, MA 02142

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