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Mingwei Liu
July 15th, 2007, 01:13 PM
BioInfoServOS is a specially customised system for scientists handling and analysing biological data, but also for easy use of daily official business handing.

BioInfoServOS is with english and simple chinese language supporting, which was reconstructed from xUbuntu 6.06 ( Hweed-Linux desktop 1.01, http://www.hiweed.com) by Dr. Mingwei Liu on Jan., 2007.

You can broswer the offical website (manly in simple chinese): www.bioinfowerv.org
to download the Live DVD iso to install it in english or simple chinese:

http://www.bioinfoserv.org/BioLinux/modules/PDdownloads/singlefile.php?cid=3&lid=10

and the deb repository can be traced from here: http://www.bioinfoserv.org/BioinfoServDeb

More screenshot: http://www.bioinfoserv.org/BioLinux/modules/myalbum/photo.php?lid=511

The pre-installed softwares included as followings:

1. Bio-softwares: Jemboss, Staden, Apollo, Argo, Artemis, clcworkbentch, BioUMl, IBGDesktop, sightPlygon, Blast, Clustw, partgene, chinook, seaview, perl-primer,Argo, atrtemis, arb, CLC, clustalx, CPG Island expolrer, masssorter, PyMol, sequence analysis,SIM4...

2. office softwares: Bibus,Pybilographic Bibilography manager, revelation,Jabref, openoffice.org, eioffice 2007...

3. downloaders: Mutiget,prozigui, gwget, FileZilla, amule, Azureus, gftp, Bitsrorm lite BT...

4. web browsers: firefox, opera...

5. chatting tools: Lumaqq, eva , Topioca Gtalk, XchatIRC, Ekiga, Gaim...

6. Desktop searchers: beagle, SearchMonkey, google desktop...

7. system tools: bootup-manager, process manager, gnome-system-monitor, remove orphaned packages, gparted, dfontgr, unison, firestar, avast!...

8.3D desktop: beryl+xgl.

9. file editors/readers/managers:Gvim, Mousepad, geditor, gimp, Draw diagrams, freemind, xfig, picasa, GQview, Ksnapshot, Freemind, Gcolor2, Chmsee, thunar...

10. virtual machines: Easywine, Hiweedlayer, vmware-player

11. Media players/CD recorders: mplayer, totoem, beep, gnomeBaker, k3b, istanbul, dvr-qt...

http://www.bioinfoserv.org/BioLinux/uploads/thumbs/511.png
http://www.bioinfoserv.org/BioLinux/uploads/thumbs/510.png
http://www.bioinfoserv.org/BioLinux/uploads/thumbs/504.png
http://www.bioinfoserv.org/BioLinux/uploads/thumbs/509.png
http://www.bioinfoserv.org/BioLinux/uploads/thumbs/431.jpg
http://www.bioinfoserv.org/BioLinux/uploads/thumbs/435.jpg
http://www.bioinfoserv.org/BioLinux/uploads/thumbs/443.jpg
http://www.bioinfoserv.org/BioLinux/uploads/thumbs/444.jpg

Mingwei Liu
July 22nd, 2007, 04:25 AM
To date, there are many bio-software compiled into BioInfoServOS, which also can be installed into other debian/ubuntu system with xfce4 desktop enviroment:

http://www.bioinfoserv.org/BioinfoServDeb

1.bioinfoserv-themes_2007-13-07_1.3_i386.deb

This package can edit more optimizing registered entries of program into menu.It includes more beaultiful icons, themes, boot splash etc.

2.bioinfoserv-base-directories_1.0-20_i386.deb

This package can make the diretories of bio-softwares on /usr/local/bioinf.

3.bioinfoserv-emboss_3.0.0-5_i386.deb


4.bioinfoserv-ape_1.2-3-2_i386.deb

APE (Analyses of Phylogenetics and Evolution) is a package written in R. APE aims to be both a computing tool to analyse phylogenetic and evolutionary data, and an environment to develop and implement new analytical methods.

5.bioinfoserv-proteindesktop_1.0_i386.deb

IBG GeneDesigner is an open-source product available for free download. It is still in development, but it can be used to design a nucleotide sequence for a particular protein (amino acid sequence) such that it will be optimized for the highest possible expression when used as a recombinant DNA fragment in a particular organism.
http://gridweb.cti.depaul.edu/twiki/bin/view/IBG/IBGSoft

6.MassSorter

administrating and analyzing data on proteins mass spectrometry experiments

7.bioinfoserv-taxinspector_2007.07.14.1.0.3b.deb

TaxInspector is a NCBI Taxonomy browser。

8.bioinfoserv-sa_2007.07.14_1.6.0_i386.deb

The purpose of Sequence Analysis is to find out orf, design primer,enzymes digest,sequence manapunation etc.

10.bioinfoserv-arb_2007.7.11_i386.deb

The ARB software is a graphically oriented package comprising various tools for sequence database handling and data analysis.

11.bioinfoserv-act_5.0-1_i386.deb

ACT (Artemis Comparison Tool) is a DNA sequence comparison viewer based on Artemis.

12.bioinfoserv-artemis_8.0-1_i386.deb

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation. Please see the file readme.bioinfoserv for suggestions about files to edit when running Artemis on BioInfoServ machines.

13.bioinfoserv-sight_2007.07.14_3.1.8_i386.deb

automating genomic data-mining without programming skills.

14.bioinfoserv-agro_1.0.18_i386.deb

The Argo Genome Browser is the Broad Institute’s production tool for visualizing and manually annotating whole genomes.

15.bioinfoserv-interproscan_2007-07-14_1.01_i386.deb

InterProScan is a tool that combines different protein signature recognition methods native to the InterPro member databases into one resource with look up of corresponding InterPro and GO annotation.

16.bioinfoserv-chinook_2007.07.14_1.02_i386.deb

chinook is a peer-to-peer (P2P) bioinformatics platform.http://smweb.bcgsc.bc.ca/chinook/index.html

17.bioinfoserv-apollo_2006-2.27-1.6.5_i386

Apollo is a collaborative open source project between the Berkeley Drosophila Genome Project, the Sanger Institute and the EBI.

18.bioinfoserv-jexproler_2007.07.14_2.7_i386

J-Express Pro is a comprehensive portable software package for analysis and visualization of microarray data.
http://www.molmine.com/jexpress/

19.bioinfoserv-wise_2007.07.14.2.1.20-2_i386.deb

Wise2 is a package focused on comparisons of biopolymers, commonly DNA sequence and protein sequence.

20.bioinfoserv-phylip_3.65-2_i386.deb

PHYLIP is a free package of programs for inferring phylogenies. It is distributed as source code, documentation files, and a number of different types of executables.
http://evolution.genetics.washington.edu/phylip.html