I think closest to what you want to do in galaxy can be done in cistrome http://wiki.g2.bx.psu.edu/Community/Cistrome Unless I am missing some galaxy tool in testing, which other galaxy users more closely following galaxy test can comment on best Abhay 2011/11/16 Mónica Pérez Alegre <monica.perez@cabimer.es>
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Hi all****
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We are working with chip-chip data of S. *cerevisiae* (from Affymetrix) and actually we have two problems and we don´t know if it´s possible to perform in Galaxy:****
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1. We use the tool intersect to get the annotation of positive genomic regions in our file bed. After, we need calculate statistical enrichments for associations between genomics regions and annotations. It´s this possible in Galaxy?**** 2. Other query. How plot for visual inspection enrichment ratio profile versus different sets of genomic loci (i.e.: tRNA, LTR,…)****
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Best Regards,****
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*☺**If you have used the Services of the Genomics Unit** **of Cabimer, we would be grateful if you would give us a mention in future publications***
***Mónica Pérez Alegre****, PhD***
*Genomics Unit*****
*CABIMER-CSIC***
*Edif. CABIMER - Avda. Américo Vespucio s/n***
*Parque Científico y Tecnológico Cartuja 93***
*41092 Seville-SPAIN*****
*Tlf: +34 954 467 828***
*Fax: +34 954 461 664***
*www.cabimer.es*****
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