ANALYSIS OF GENETIC DATA USING BIOCONDUCTOR R

点击翻译按钮获取中文摘要

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. The purpose of the project is to identify specific types of genetic analyses performed by members of BHSUs Center for the Conservation of Biological Resources (CCBR) amenable to the use of facilities available in the open source Bioconductor R environment/package, to learn how to manipulate the appropriate packages in that environment to provide analytical output useful to CCBR staff members in their projects, and then finally to train these staff members in the use of these computing resources. This last step is particularly important because it will, ideally, train CCBR members in the basic utilization of a computing environment which, because it is an open source development environment, evolves constantly through the addiction of packages to accommodate the computing requirements of new genetic techniques and technologies. This project will involve three steps. First, I will work with members of the CCBR staff this semester to identify a small number (3 or 4) of computing tasks which arise in the context of current projects, focusing particularly on tasks for which available proprietary software is either non-existent or not suitably flexible and for which Bioconductor has a currently available developer-contributed software packages. Second, I will develop facility in using these packages myself by applying them to tasks/data arising from projects currently being undertaken in the CCBR lab. Finally, I will provide directed training to appropriate CCBR staff in the implementation and basic use of Bioconductor and in the use of the specifically identified packages in the computing environments available to them.