Gene Expression To Spreadsheet (GETS)
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Software
GETS is primarily designed as a Linux command-line tool that can be incorporated to (usually the tail end of) an expression analysis pipeline. The Perl code and examples can be downloaded from
here
. Documentation can be downloaded from
here
.
Web-based tool
A quick guide on how to use this web-based version of GETS can be downloaded from
here
.
Example 1
A toy example where the matrix is already centered and gene and sample information files are ordered. Can be run without adjusting any parameters.
Matrix file
download
Gene information file
download
Sample information file
download
Colors file
download
Example 1 - matrix not centered
The same data as in Example 1 but the matrix not centered.
Center
must be set to
TRUE.
Matrix file
download
Gene information file
download
Sample information file
download
Colors file
download
Example 1 - sample info as rows
The same data as in Example 1 but the samples are rows in the sample information file.
Which format is the sample information file?
must be set to
rows
.
Matrix file
download
Gene information file
download
Sample information file
download
Colors file
download
Example 2 - gene info not ordered
An example where the gene information file is not ordered and only a subset is present as gene names in the matrix.
Is gene information data already ordered?
must be set to
FALSE
. Otherwise, gene info data will not match the gene order in the matrix.
Matrix file
download
Gene information file
download
Example 3
This is a more complex example, extracted from experiment GSE94648 from GEO. Matrix data is not centered, and neither gene information nor sample information files are ordered.
Center
must be set to
TRUE
,
Is gene information data already ordered?
must be set to
FALSE
,
Is sample information data already ordered?
must be set to
FALSE
, and
Which format is the sample information file?
must be set to
rows.
Matrix file
download
Gene information file
download
Sample information file
download
Colors file
download
Last updated in September, 2019