EuPathDB: the eukaryotic pathogen genomics database resource

Aurrecoechea, Cristina; Barreto, Ana; Basenko, Evelina Y.; Brestelli, John; Brunk, Brian P.; Cade, Shon; Crouch, Kathryn; Doherty, Ryan; Falke, Dave; Fischer, Steve; Gajria, Bindu; Harb, Omar S.; Heiges, Mark; Hertz-Fowler, Christiane; Hu, Sufen; Iodice, John; Kissinger, Jessica C.; Lawrence, Cris; Li, Wei; Pinney, Deborah F.; Pulman, Jane A.; Roos, David S.; Shanmugasundram, Achchuthan; Silva-Franco, Fatima; Steinbiss, Sascha; Stoeckert, Christian J.; Spruill, Drew; Wang, Haiming; Warrenfeltz, Susanne; Zheng, Jie

Galaxy workspace. EuPathDB sites now include a Galaxy-based (10) workspace for large-scale data analyses, e.g. RNA-seq read mapping to a reference genome. Developed in partnership with Globus Genomics (11), workspaces offer a private analysis platform with published workflows and pre-loaded annotated genomes for the organisms we support. The workspace is accessed through the 'Analyze My Experiment' (Figure 2A ) tab on the home page of any EuPathDB resource and can be used to upload your own data e.g. RNA-seq reads, compose and run preconfigured or custom workflows ( Figure 2B and C), retrieve your results, visualize them in EuPathDB ( Figure 2D ), and share workflows and data analysis results with colleagues.