17 lines
1.5 KiB
Markdown
17 lines
1.5 KiB
Markdown
---
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author: einar
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categories:
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- Science
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comments: true
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date: "2007-03-29T19:29:42Z"
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header:
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image_fullwidth: banner_other.jpg
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slug: genbugg
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title: GenBUGG
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disable_share: true
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wordpress_id: 205
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---
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This entry already shows what I think of a popular open source pathway analysis and visualization program, [GenMAPP](http://genmapp.org). It's quite used to map gene expression data coming from microarrays to metabolic pathways, and in addition to that you can also evaluate enrichment for both pathways and [Gene Ontology](http://www.geneontology.org) terms. Last but not least you can create and contribute new metabolic maps.
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So why the title of the post? Because, despite being actively developed and with conscious developers that don't want to break the software with new features, it's **extremely** buggy. Yesterday I spent a whole afternoon trying to get it to work. The program doesn't work if you use the comma as the decimal separator OS-wide, or some applications crash completely if your regional settings (sadly it's a Windows only program) aren't set to USA. What's worse is that such a "feature" [has been reported two years ago](http://groups.google.com/group/GenMAPP/browse_thread/thread/655f3d515b7460fe/0f6afe0582df6b74?lnk=gst&q=MAPPFinder.cfg&rnum=1#0f6afe0582df6b74). I can understand the limited resources and all, but _please_, those are really basic bugs. It's not as bad as [software "fit for publication"](http://www.nodalpoint.org/2006/12/01/software_fit_for_publication), but still a massive annoyance...
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