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Bioinformatics Software

Contents

Trace Viewing - Java chromatogram browser
JESAM - Large scale DNA Alignment and assembly
ICAtools - EST clustering and sequencing artefact discovery
Miropeats - Graphical DNA repeat browsing
Lane Tracking - Sequencing gel analysis

Trace Viewing

Java/Corba Trace Viewer - HTML Version of CORBA trace viewer paper published in the journal Genome Research
Free download directory - Look for CorbaTraces package

JESAM

JESAM Paper - An on-line HTML version of Bioinformatics scientific paper
JESAM download - JESAM archive files (x2) in the download directory
Documentation - JESAM installation documentation
EST Assembly - Introduction to old ideas for EST assembly
EST Assembly Links - Hypertext links to other useful sites for EST assembly

ICAtools

Documentation - ICAtools documentation
Free download directory

Miropeats

Lane Tracking

GetLanes - Old archive of the GetLanes lane tracking C source code.

Little Scripts

spreader - little UNIX shell script that launches rsh jobs across a range of machines like a cheap and easy version of LSF
getlanesd - Perl daemon script that watches a UNIX mounted Mac directory and runs a getlanes lane-tracking program on the ABI gel. May have other use for daemon scripts.