Difference between revisions of "Data formats"
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<p class="small"> Note: The GCT & RES expression formats supported by GSEA are identical to those supported by GenePattern. Some description is duplicated here - the GenePattern website has more documentation on file formats. </p> | <p class="small"> Note: The GCT & RES expression formats supported by GSEA are identical to those supported by GenePattern. Some description is duplicated here - the GenePattern website has more documentation on file formats. </p> | ||
| − | <hr /> <br /> <br /> <a name="gct"><strong>GCT File Format</strong></a><br /> <br /> The GCT format is a tab delimited file format that is organized as follows<br /> <img | + | <hr /> <br /> <br /> <a name="gct"><strong>GCT File Format</strong></a><br /> <br /> The GCT format is a tab delimited file format that is organized as follows<br /> <img src="../../../images/gct_format_snapshot.png" alt="GCT format snapshot" /> |
Revision as of 11:45, 24 March 2006
Contents
Expression data formats
- <a href="../../../doc/data_formats.html#gct">GCT: Gene Cluster Text file format (*.gct)</a>
- <a href="../../../doc/data_formats.html#res">RES: ExpRESsion (with P and A calls) file format (*.res)</a>
- <a href="../../../doc/data_formats.html#pcl">PCL: Stanford cDNA file format (*.pcl)</a>
Phenotype data formats
- <a href="../../../doc/data_formats.html#cls">CLS: Categorical (e.g tumor vs normal) class file format (*.cls)</a>
- <a href="../../../doc/data_formats.html#cls2">CLS: Continuous (e.g time-series or gene profile) file format (*.cls)</a>
Gene set database formats
- <a href="../../../doc/data_formats.html#gmx">GMX: Gene MatriX file format (*.gmx)</a>
- <a href="../../../doc/data_formats.html#gmt">GMT: Gene Matrix Transposed file format (*.gmt)</a>
- <a href="../../../doc/data_formats.html#grp">GRP: Gene set file format (*.grp)</a>
- <a href="../../../doc/data_formats.html#mdb">MDB: Molecular signature database file format (*.mdb)</a>
Microarray annotation formats
- <a href="../../../doc/data_formats.html#chip">CHIP: Chip file format (*.chip)</a>
- <a href="../../../doc/data_formats.html#map">MAP: Chip mapping file format (*.map)</a>
Ranked gene lists
- <a href="../../../doc/data_formats.html#rnk">RNK: Ranked list file format (*.rnk)</a>
Note: The GCT & RES expression formats supported by GSEA are identical to those supported by GenePattern. Some description is duplicated here - the GenePattern website has more documentation on file formats.
<a name="gct">GCT File Format</a>
The GCT format is a tab delimited file format that is organized as follows
<img src="../../../images/gct_format_snapshot.png" alt="GCT format snapshot" />
