[4728] in linux-announce channel archive
Linux-Announce Digest #21
daemon@ATHENA.MIT.EDU (Digestifier)
Sat Jan 22 17:13:06 2005
From: Digestifier <Linux-Announce-Request@senator-bedfellow.mit.edu>
To: Linux-Announce@senator-bedfellow.mit.edu
Reply-To: Linux-Announce@senator-bedfellow.mit.edu
Date: Sat, 22 Jan 2005 17:13:02 EST
Linux-Announce Digest #21, Volume #5 Sat, 22 Jan 2005 17:13:02 EST
Contents:
[HUMBUG] Next Meeting - 29th January 2005 (Mark Suter)
GNU/Linus distros for life sciences/bioinformatics researchers ("Frederick Noronha (FN)")
----------------------------------------------------------------------------
Date: Fri, 21 Jan 2005 20:00:23 CST
From: Mark Suter <suter@zwitterion.humbug.org.au>
Subject: [HUMBUG] Next Meeting - 29th January 2005
The Home Unix Machine Brisbane Users Group exists to get fellow
Unix users in contact with each other, to introduce people to
Unix and Unix-like operating systems, and to help users in
operating those systems. Everyone is welcome to attend.
Meetings tend to be informal. We socialize, discuss Unix and
computing, solve Unix problems for new and experienced users
alike and, these days, have regular talks.
Date: Saturday, 29th January 2005 (every second Saturday)
Time: From 3pm with the network up 30 minutes after we are
granted entry. The network will be brought down after
midnight to allow time to clean up for a 1am exit.
Venue: Room 343, General Purpose South (no. 78)
The University of Queensland, St Lucia Campus
Car parking is currently unregulated on Saturdays. The
University is serviced by public transport with frequent
buses during University terms. For more information:
http://www.uq.edu.au/about/index.html?page=1070
http://www.uq.edu.au/maps/index.html?menu=1&z=2&id=71
Cost: Membership until our AGM in September is $20, but no one
has to join unless they are going to use club services
such as our network access during meetings.
Talks: Information on upcoming talks is announced separately.
For information on talks see the announcements by our
Talks Maintainer on the announce mailing list.
Food: The eating places (ranging from take away to a la Carte)
at 'The Ville' are usually open until about 10pm Saturday
night. There is also the Pizza Cafe on campus near the
Schonell Theater:
http://www.uqunion.uq.edu.au/schonell/pizzacaffe/
http://www.uq.edu.au/maps/index.html?menu=1&z=2&id=11
Drinks: Various soft drinks and snacks are available from the
three vending machines located immediately outside the
room. Remember to bring change!
For more information on club meetings and HUMBUG itself see our
web page at http://www.humbug.org.au/ or email me directly.
Humbug President
##########################################################################
# Send submissions for comp.os.linux.announce to: cola@stump.algebra.com #
# PLEASE remember a short description of the software and the LOCATION. #
# This group is archived at http://stump.algebra.com/~cola/ #
##########################################################################
------------------------------
Date: Sat, 22 Jan 2005 01:56:09 CST
From: "Frederick Noronha (FN)" <fred@bytesforall.org>
Subject: GNU/Linus distros for life sciences/bioinformatics researchers
Thanks to "Tarun Kant" <tarunkant@linuxmail.org> and the SunnyLUG from
Jodhpur for this useful piece of information
For people who are into life science research / bioinformatics, there are
a few good linux distros available. I will be trying these out in the
coming days and will keep posting my experiences. These are:
1. DNALinux
DNALinux is a is a SLAX-based Linux distribution with bioinformatics
software pre-installed. DNA and protein sequence manipulation software is
included. Like EMBOSS, Primer3, ClustalW, T-Coffe and others.
Website: http://www.dnalinux.com/
2. BioBrew Linux
BioBrew Linux is an open source Linux distribution based on the NPACI
Rocks (www.rocksclusters.org) cluster software and enhanced for
bioinformaticists and life scientists. While it looks, feels, and
operates like ordinary Red Hat Linux, BioBrew Linux includes popular
cluster software e.g. MPICH, LAM-MPI, PVM, Modules, PVFS, Myrinet GM, Sun
Grid Engine, gcc, Ganglia, and Globus, *and* popular bioinformatics
software e.g. the NCBI toolkit, BLAST, mpiBLAST, HMMER, ClustalW,
GROMACS, PHYLIP, WISE, FASTA, and EMBOSS. It runs on everything from
notebook computers to large clusters.
Website: http://bioinformatics.org/biobrew/
3. Bio-Linux
Bio-Linux provides both standard and cutting edge bioinformatics tools on
a Linux base. It is powerful, configurable and easy to maintain.
Bio-Linux has been customised for ease of use and provides an ideal
system for scientists handling and analysing biological data. Bio-Linux
also comes with many development tools, providing a solid base for
bioinformatics software development. It can also be easily deployed as a
computer cluster. As of version 4.0, Bio-Linux is based on the Debian
GNU/Linux distribution. Bioinformatics-related customisations include the
inclusion of a large number of bioinformatics programs and programming
libraries, the addition of graphical menus for much of the bioinformatics
software, and links from the desktop to key documentation and
applications. The system also includes a comprehensive, categorised and
searchable documentation system for bioinformatics software.
4. Bioknoppix
The University of Puerto Rico High Performance Computing facility (HPCf)
and the Puerto Rico Biomedical Research Infrastructure Network (BRIN-PR)
have release Bioknoppix. Bioknoppix is a live CD linux, based on KNOPPIX,
and specialized to include tools for bioinformatics. Bioknoppix does not
need to be installed on your computer, making it a perfect tool for
workshops and demos. Some of the software included in the 0.3 release are
EMBOSS 2.8.0, jemboss, artemis, clustal, Cn3D, ImageJ, BioPython, Rasmol,
Bioperl, Bioconductor
Website: http://bioknoppix.hpcf.upr.edu/
5. Biolinux-BR
BioLinux-BR is a project directed to the scientific community. The
intention is to create a Linux distribution for people with little
familiarity with the installation of the operational system and mainly
for people that do not know how they must proceed to unpack a program,
compile and install it correctly. For these reasons, this is a Linux
system that aims to be easy to use and still offering packages that will
be part of the BioLinux-BR.
Website: http://glu.df.ibilce.unesp.br/
6. Vlinux
VLinux Bioinformatics workbench is a Linux distribution for
Bioinformatics. It is easy to use, no installation required, CD-based
distribution based on Knoppix 3.3. It includes a variety of sequence and
structure analysis packages.It is an Open source product released under
the GNU GPL License.
Website: http://bioinformatics.org/vlinux/index.html
7. Vigyaancd
VigyaanCD is a live Linux CD containing all the required software to boot
the computer with ready to use modeling software. VigyaanCD v0.1 is also
based on KNOPPIX v3.3. It contains programs for bioinformatics,
computational biology and computational chemistry. It also has genomes
from Eschercia coli (K 12) and Synechococcus sp. WH 8102 It is suitable
both for beginners (12 demos and tutorials) and experts. ISO image size
(v 0.1) is 647 MB.
And let me tell you this is an effort by an Indian. Kudos to you Pratul
K. Agarwal for such a nice package. In fact I just downloaded the CD and
have casually tried it. Looks superb. It has the option for a persistant
home directory on HDD, which is very essential for Live CDs. Every thing
is very comprehensively arranged. Once again. Three chers for Pratul.
Cheers -Tarun
========================================================================
<*> To visit your group on the web, go to:
http://in.groups.yahoo.com/group/SunCityJodhpurLUG/
========================================================================
##########################################################################
# Send submissions for comp.os.linux.announce to: cola@stump.algebra.com #
# PLEASE remember a short description of the software and the LOCATION. #
# This group is archived at http://stump.algebra.com/~cola/ #
##########################################################################
------------------------------
** FOR YOUR REFERENCE **
The service address, to which questions about the list itself and requests
to be added to or deleted from it should be directed, is:
Internet: Linux-Announce-Request@NEWS-DIGESTS.MIT.EDU
You can submit announcements to be moderated via:
Internet: linux-announce@NEWS.ORNL.GOV
Linux may be obtained via one of these FTP sites:
ftp.funet.fi pub/Linux
tsx-11.mit.edu pub/linux
sunsite.unc.edu pub/Linux
End of Linux-Announce Digest
******************************
