The tools, scripts, modules, etc. are available in bundled form from the download server. A few links are provided here for some of them.
Please note that many of these files contain site-specific paths and other elements which may need to be modified to work somewhere else. Also, any third-party software which has licensing constraints is included by reference only.
Tool | Programs | Dependencies | Documentation |
---|---|---|---|
GOTermFinder |
GOTermFinder.pl The script for finding significant GO terms from a list of genes, using gene ontology and gene association files produced by the GO Consortium and the GO-TermFinder perl module. |
Our web implementation uses some modified portions of the GO-TermFinder perl module. These can be obtained from the download server. | |
Heatmap |
heatmap_table.pl A simple perl script to generate heatmaps. Large images are split into multiple images. A html table is output to put them back together. |
picoXML.pm | html |
None yet |
merge_on_id.pl A script that takes two delimited text files and merges rows together that share a common identifier. |
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Delimited text converter Map identifiers |
munge.pl The delimited text converter script. This also handles identifier mapping. |
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PruneTree | pruneTree.pl | ||
Iclust |
IclustEstS.tar The Iclust and EstS programs. |