DRY LAB

From Dibernardo

Contents 1 FILE EXCHANGE (for internal use only) 2 SERVERS INTERNAL ADDRESS 3 FILE EXCHANGE via ftp 4 BORROWED BOOKS 5 MATLAB STUFF 6 INTERESTING STUFF 7 JOURNALS' WATCH LIST 8 UPCOMING CONFERENCES AND DEADLINES 9 Cluster - who to contact 10 KARMA & MATLAB (file system)

FILE EXCHANGE (for internal use only)

click here

SERVERS INTERNAL ADDRESS

• 192.168.5.11 base.tigem.it (prima aveva il 192.168.3.23)
• 192.168.5.12 biodb.tigem.it (prima aveva il 192.168.3.14)
• 192.168.5.13 bioinfo.tigem.it (prima aveva il 192.168.3.35)
• 192.168.5.14 cluster.tigem.it (prima aveva il 192.168.3.189)
• 192.168.5.15 developerarea.tigem.it (prima aveva il 192.168.3.240)
• 192.168.5.16 karma.tigem.it (prima aveva il 192.168.3.251)

• Vi ricordo, per vostra comodita', che potrete continuare ad usare i nomi

simbolici (nome.tigem.it).

FILE EXCHANGE via ftp

Il servizio é attivabile inviando una mail con User, password, group and email-address all'indirizzo icore@tigem.it.

Il servizio é accessibile all'indirizzo ftp.tigem.it (via browser).

Lo sapzio assegnato inizialmente é di 1GB, estendibile upon request all'indirizzo icore@tigem.it

Client ftp:

Cyberduck (http://cyberduck.softonic.it/mac/download) x utenti MAC

Filezilla (http://filezilla-project.org/download.php?type=client) per MAC e WINDOWS users.

BORROWED BOOKS

Annamaria:

Statistical Decision Theory and Bayesian Analysis

Mario/Stefania:

Biology for Dummies

Luisa

Model selection and multimodel inference

Annamaria

Live cell imaging

Statistics for Microarrays - Design, Analysis and Inference

Bioinformatics for Dummies

Probability & Statistics

Graciana

Introduction to systems biology

Nicoletta Moretti:

Human Molecular Genetics ( @home ) -- Recombinat DNA ( @home )

MATLAB STUFF

• Curve with faded errors by Francesco

• Density based clustering by Francesco

• How to use our cluster with MATLAB

• Writing fast MATLAB code [1]

• How to use Matlab compiler under Linux by Luisa

• Using MATLAB without compiler and qsub

• MATLAB GRAPH LIBRARY

• Slow MATLAB in MACOSX fix

• GO Enrichment Analysis

INTERESTING STUFF

• How to draw networks (From Kitano) by Lucia

• Biclustering tool by Luisa

• iHop - tool for textmining - just write a gene name and find the known interactors in litarature

• a program that estimates half-life of proteins from the sequence

• Comprehensive book chapter about microscopy

JOURNALS' WATCH LIST

Links to Journals

UPCOMING CONFERENCES AND DEADLINES

Cluster - who to contact

• Gennaro Oliva - oliva.g@na.icar.cnr.it

KARMA & MATLAB (file system)

Hi all, I have setup a common file system for karma and the cluster as requested by Mario Lauria. The directory is /home/common, owned by matlab user, hosted by karma and exported to the cluster. The directory is mounted with autofs and therefore it is not visible until it is accessed. Try this to understand how it works (sorry if you already know): ssh c0-X #choose any node you want ls /home #see that the common is not present cd /home/common #see that it is automagically mounted Ciao a tutti -- Gennaro