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The sheer volume and complexity of data generated from mid-size to
large-scale projects imposes computational demands that exceed
capabilities of most individual laboratories. The Keck facility
maintains high-performance computing capabilities for genomic,
phylogenetic and bioinformatic analyses. The faculty and bioinformatics
staff of the JBPC have considerable expertise in pure statistics,
genome assembly, gene expression, phylogenetics, information management,
software development, data acquisition pipelines, and database management.
We have a large variety of computing
platforms, including high performance platforms for floating point math
and high memory demands, plus Beowulf clusters for high-throughput
parallel computing. We maintain ARB, PHRED, PHRAP, ARACHNE,
Glimmer, SEALS, HMMER, DARWIN, Accelrys GCG, InterProScan and over 100
additional software packages. We maintain local copies of
Genbank, SwissProt and Pfam and other databases. We also have software for
analysis of DNA microarrays and a comprehensive collection of
phylogenetic analysis programs including PROTML, PUZZLE, PAUP, PHYLIP,
MrBayes, etc. and a host of supporting software for examination,
visualization and presentation of data.
- Would you like an account to use our systems?
Accounts are available for all JBPC researchers and their
collaborators. Support for additional members of the Woods Hole
Scientific Community may be provided, depending upon planned research
demand and resource availability. Please contact rfox@mbl.edu for more information.
- Have a question about bioinformatics processing? Members, please send your message to biocomp@lists.mbl.edu.
This mailing list is monitored by all of the computational biology users and staff and is your best resource for quick replies and support. Requests for general advice are welcome!
- Want notices on hardware status, software changes, and general usage hints? Please join the biocomp-users mailing list! This list is moderated. You will only receive messages from the JBPC BioComp staff.
- Data Integrity is provided by mirrored
RAID servers and tape backups of all data on our core fileservers (i.e.
files you access using your JBPC username and password). Tape backup,
CD burning, or DVD burning of other data sources can be provided as
needed. Desktop and laptop computers can be backed-up on a daily or
weekly basis using our Retrospect Server. Contact biocomp@lists.mbl.edu to schedule backups of your computers.
- Norton Antivirus is available for your
computers for a small fee from MBL Information Technology. To obtain a
copy of Norton Antivirus, please submit a IT Work Order (cost center required).
- Perl Resources The archive of the MBL-TIGR Genomes Course has some excellent Perl resources. Have you thought of taking Art's Perl Class? Can't remember a Perl trick? Look it up in the Perl CD Bookshelf (password protected).
- Current Protocols in Bioinformatics The
McArthur laboratory has placed a subscription to this volume in the
JBPC Conference Room. The current Table of Contents can be viewed here.
- More Online Resources NAR's Molecular Biology Database Collection and Online Servers Issue, the MolBiolNet list of Bioinformatics Resources, Joe Felsenstein's List of Phylogenetic Software, plus software, demos, and lectures are available on the websites for the Workshop on Molecular Evolution, and the MBL-TIGR Genomes Course.
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