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Batik
Batik is an advanced data analysis package that provides statistical techniques and visualizations to support gene and protein expression analysis.
Batik provides simple guides to analyse and integrate microarray, RT-PCR and MS/MS data, making it possible for users of all levels to produce meaningful and reliable results, focusing in the biological analysis of the

It integrates well with R/Bioconductor allowing the deployment of the most recent algorithms, as well as with external resources (Ingenuity Pathways, EBI web services, Entrez, etc)
 
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