Figure 1

Module-based modeling of JUICE permits a flexible branch pipeline of information associated with an EST Project workflow to be organized and accessed. This figure represents an EST project workflow that has been model into JUICE. A) An EST project workflow organized into modules. B) A tree representation of this EST project workflow as it appears in the JUICE web interface. The EST project workflow in panel A has been organized into modules. Two examples of modules have been marked by the light gray dashed boxes. Each module incorporates a group, process and the products of the process. In the example in the horizontal dashed box, the group would be the "EST working set"; the process would be "CAP3 parameters 96/50"; and the products of the process would be "Contigs" and "Singletons". Similarly in the example in the vertical dashed box, the group would be "EST working set"; the process would be a "Highpass quality filter"; and the products of the process would be the "Excluded ESTs" as well as the "ESTs that are good quality". Because of this module-based modeling of JUICE, additional modules may be added, deleted and/or modified without the need to create a new pipeline. Additionally, searches may be performed between the different branches of this pipeline. Rectangles represent processes; rhomboids represent sequences that may be groups and/or products of processes; multidocument forms represent additional information that may be associated with the sequence information (i.e. quality information, chromatograms, annotations, etc.). NT: Non-redundant (NR) database in NCBI. EST-F: ESTs that passed the filter process. Contigs-F: Contigs formed in the assembly process using the ESTs that passed the filter process as the input. Singletons-F: Singletons formed in the assembly process using the ESTs that passed the filter process as the input.