Research Computing Support at UCI ================================= //Harry Mangalam mailto:harry.mangalam@uci.edu[harry.mangalam@uci.edu] //v0.1, 29 July 2009 // generate HTML with: // export fileroot="/home/hjm/nacs/lunch_with_RCS"; asciidoc -a toc -a numbered ${fileroot}.txt; scp ${fileroot}.* moo:/home/hjm/public_html The Research Computing Support (RCS) Group at NACS is composed of 4 people with particular abilities for assisting scientists with most aspects of Research Computing, from introduction to Linux and using the bash shell to Geographical Informations Systems, to data manipulation to various kinds of analysis, visualizations, and high performance computing, including optimization of parallel code for cluster computing. If you or your faculty would be interested in speaking to any or all members of the RCS staff about your research computing needs or problems, please contact The members include: Joseph Farran ------------- Background ^^^^^^^^^^ Specific Expertise ^^^^^^^^^^^^^^^^^^ High performance computing and storage, compute cluster setup, queueing systems, custom programming (including MPI). Documents, papers ^^^^^^^^^^^^^^^^^ Harry Mangalam -------------- , 949 824 0084 (o), 949 285 4487(c) Background ^^^^^^^^^^ - Commercial and NonProfit Bioinformatics companies - PostDoc in Fly Genetics, Salk Inst, 1993 - PhD in Physiology and Pharmacology, UCSD, 1989 - MSc in Comparative Physiology, UBC, 1985 Specific Expertise ^^^^^^^^^^^^^^^^^^ Bioinformatics, Visualization, Linux shell, data manipulation (slicing, reduction, format interchange), workflow, network data movement, code profiling & optimization, Storage/Backup, custom programming (Perl, Python, C, bash), Open Source Software, cluster operation and/or the SGE queueing system, code co-development (svn, trac, wikis, forums, etc). Relevant Documents, papers ^^^^^^^^^^^^^^^^^^^^^^^^^^ - http://moo.nac.uci.edu/~hjm/AnRCheatsheet.html[An R Overview & Cheatsheet] - http://moo.nac.uci.edu/~hjm/BDUC_USER_HOWTO.html[New User Intro to the BDUC Cluster] - http://moo.nac.uci.edu/~hjm/HOWTO_move_data.html[How to transfer large amounts of data via network.] - http://moo.nac.uci.edu/~hjm/ManipulatingDataOnLinux.html[Manipulating Data on Linux] - Save $ on Software[Save $ on Software] - http://moo.nac.uci.edu/~hjm/UCI_OSS_Backup_Evaluation.html[Open Source Backup Packages] - http://dabrick.nacs.uci.edu/trac/bduc/wiki/Scut[scut - a utility to slice and dice columnar data] - https://nacs.uci.edu/rcs/mediawiki-1.5.8/index.php/Profiling[An intro to Code Profiling] - http://dabrick.nacs.uci.edu/trac/bduc/wiki/SQLite[An example perl script that uses SQLite] - http://dust.ess.uci.edu/ppr/ppr_ZeM07_ijhpca.pdf[Scaling Properties of Common Statistical Operators for Gridded Datasets] - http://www.biomedcentral.com/1471-2105/3/8[tacg, a grep for DNA] Tony Soeller ------------ Background ^^^^^^^^^^ Specific Expertise ^^^^^^^^^^^^^^^^^^ Documents, papers ^^^^^^^^^^^^^^^^^ Frank Wessel ------------ Background ^^^^^^^^^^ Specific Expertise ^^^^^^^^^^^^^^^^^^ Documents, papers ^^^^^^^^^^^^^^^^^