Data Download (deprecated)

Data files can be downloaded after having performed a database search or data analysis procedure. An example download box is shown below:

The corresponding file formats are:

PROGENETIX JSON FILE

This is a standard JSON file structure with each line being a sample entry. You can read it e.g. into a list in Perl:

use JSON;
my $json = JSON->new;
open FILE, "myPathTo/progenetix.json" or warn "No file myPathTo/progenetix.json $!";
my @filecontent = ();
close FILE;
chomp @filecontent;
my @data;
foreach (@filecontent) {
	push(@data, $json->relaxed(1)->decode( $_ ));	
}
</pre>

PROGENETIX TAB FILE

this is a tab-delimited text file containing most of the data fields. CNA segments are concatenated in one entry:
chr1:158800000-247249719:1::chr4:0-107899999:-1::chr6:29900000-45199999:-1

SEGMENTS LIST FILE

CNA segment information saved as a tab-delimited list, including the sample UID in the first column:

sampleID	chro	basestart	basestop	segvalue	probes
GIST-ass-15	1	0	124299999	-1	NA
GIST-ass-16	1	142400000	149599999	1	NA
...
Depending on the active page, the value may be the original log2 value from an array or more commonly the status marker. "Probes" will only display a value when plotting array specific data.
2012-03-23