Software, methods

Trying to list software/methods/database systems provided to FANTOM5. Feel free to add

Read alignment with genome

• Delve - contact: Timo Lassmann

Tag clustering / peak calls

• see Clustering_evaluation

Genome Browser

• see the left section (side bar) - ZENBU and UCSC RIKEN mirror

Expression

• BioLayout http://www.biolayout.org/fantom5/
• Pathway fingerprinting - see [fantom5:00982] http://compbio.sph.harvard.edu/hidelab/pathprint/Pathprint/Pathway_Fingerprint.html
• SwitchEngine See October_meeting

Sample exploration

• FONSE (the Fantom ONtology Sample Explorer) http://yuri.lbl.gov:8600/fonse/ - see [fantom5:00967] for username and password
• resource_wiki https://fantom5-collaboration.gsc.riken.jp/resource_wiki/