Courageous Cantaloupe

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March 2010, third public data release through ProteomeCommons.org's Tranche Network Collaborators User:Andrea Loehr (PGP) User:Alexander Wait Zaranek (PGP) User:Brandon K. Grantham (PGP) User:Bryan E. Smith (Tranche) Content Raw images from targeted capture experiments from PGP1-5,PGP7-10. PGP reads from GA Pipeline 1.0, 1.3.2, Swift. Alignment results and raw reads from all Trait-o-matic genomes Data from accepted Publications: Add Bioinformatics... Add Nature... Add Science... Add ... Free and open source software in use at PGP: Trait-o-matic Free Factories Other free and open-source software of interest: BOINC & BOSSA Ubuntu Cloud Eucalyptus PeoplePower and StatusUpdate AL: collect all data on Orchestra /groups/pgp/ PGP4 now available process data with GAP1.3.2, Swift, MAQ BOINC application read documentation, download and use correspond with David Anderson keep track of published/accepted data in touch with Jay Lee AWZ: Software BOINC application David Anderson suggested we start by using the mailing lists. He is mostly focused on Bossa and I can't help wonder if we should be focused on Bossa ourselves. It would be very impressive to have our community of volunteers helping to populate a database of genetic variants by culling the literature and performing other tasks. See http://stardustathome.ssl.berkeley.edu/ for an example of the sort of project that Bossa is intended to facilitate. Also see Amazon's Mechanical Turk BKG: BOINC application read documentation, download and use document progress at PGP and BOINC BES: Tranche upload fold Tranche up-/download tools into BOINC application Data Processing AL: I have processed the following data with GAP1.3.2 and Swift: Processed: PGP1: PGP1_37_003 PGP2: PGP2_37_002 PGP3: PGP3_35_003 PGP4: PGP4_43_002 PGP5: PGP5_44_002 PGP8: PGP8_51_002, PGP8_37_001 PGP9: PGP9_43_003 PGP10: PGP10_41_003 Open: PGP7_44_004 PGP8_51_006 PGP9_51_003, PGP9_51_007 Notes: PGP5_44_002 stacks 95-100 could not be processed with Swift. Nava implemented a bug fix to Swift, needs rerun with latest Swift version. PGP9_43_003 stacks 1,2 .fastq and .nonpf missing, need rerun PPG6: Do not process, redacted. Data location: Complete Swift results including raw intensity files and reads are at /boinc-dev-scractch/PGP* Complete RunFolders from GAP1.3.2 are at /boinc-scratch/RunFolder*