new additions to the linkage program list

wentian li wli at LINKAGE.ROCKEFELLER.EDU
Wed Jun 18 17:36:52 EST 1997


New additions to the "alphabetic list of genetic analysis software"
===================================================================
        (URL: http://linkage.rockefeller.edu/soft/list.html)

since Nov 1996:


ACT : analysis of complex traits, which replaces MAGE
        (from Chris Amos' group)
        ftp:ftp://request.mdacc.tmc.edu/pub/Programs/Act/

ASPEX: multipoint exclusion mapping of affected sib pair data
for 		        discrete traits (by D. Hinds and N. Risch of Stanford).
         ftp://lahmed.stanford.edu/pub/aspex

BLOCK: blocking Gibbs sampler for pedigree analysis
        (by Claus Skaanning Jensen of Aalborg University, Denmark)
        web: http://www.cs.auc.dk/~claus/block.html
        ftp: ftp://ftp.cs.auc.dk/pub/packages/block/current

CASPAR: computerized affected sibling pair analyzer and reporter
        (by Richa Agarwala and Alejandro Schaffer of NIH)
        ftp: ftp://fastlink.nih.gov/pub/caspar

CROSSFIND: detecting meiotic breakpoints
        (by J. Attwood and S. Povey, Univ College London)
        README:   
http://www.gene.ucl.ac.uk/public-files/packages/jattwood/bpt.sun4.tar.README.txt
        ftp: ftp://ftp.gene.ucl.ac.uk/pub/packages/jattwood

DMS: a database management system for use with positional mapping 
 	projects.
        (from Mansoor Sarfarazi of UConn Health Ct).

FAST-MAP: Fluorescent Allele-calling Software Toolkit - Microsatellite
        Automation Package (by M. Perlin's group at Carnegie Mellon)
        web: http://www.cs.cmu.edu/~genome/FAST-MAP.html

GAP: genetic analysis package (from Epicenter Software)
        web: http://icarus2.hsc.usc.edu/epicenter/gap.html

GASP : genometric analysis simulation program
        (by A.F. Wilson of NIH)

GASSOC : association analysis using cases and their parents
        (from D. Schaid's group at Mayo Clinic)
        web: http://www.mayo.edu/statgen

PANGAEA : pedigree analysis for genetics (and epidemiology attributes)
        consists of BOREL, HARDY, MORGAN and PEDPACK (from E.A.
	Thompson's group at Univ Washington).
        web: http://www.stat.washington.edu/thompson/pangaea.html
        ftp: ftp://ftp.stat.washington.edu/pub/thompson/PANGAEA/

RELATIVE: relationship estimation
        (by H. Goring of Columbia Univ)
        ftp: ftp://linkage.rockefeller.edu/software/relative

RELTYPE : determine biological relatedness between individuals using
        allele sharing information of microsatellite loci
        (from UTexas Health Ct at Houston)

GASSOC : association analysis using cases and their parents

SPERM: analysis of sperm typing data
        (by L. Lange and L. Lazzeroni)
        web: http://www.sph.umich.edu/group/statgen/klange/

TkMap : drawing genetic maps
        (by H.O. Zuazaga, R. Plaetke of UTexas Health Sci at SA)
         http://momo.uthscsa.edu/~humberto/cmb/tkmap/

TWOLOC: analyzing two-locus susceptibility gene models in affected
        sib-pair data (by Martin Farrall of Wellcome Trust)
        ftp:  ftp://ftp.well.ox.ac.uk/pub/genetics/twoloc/

WEB-PREPLINK: web interface for praparing "datafile" for LINKAGE
        (by W. Li of Rockefeller Univ)
        web: http://linkage.rockefeller.edu/gui/webpreplink.html


New home pages:
===============

K.Lange's software:
        web: http://www.sph.umich.edu/group/statgen/klange/lange.html ;

Retired from the list:
======================

LINKSYS
PEDRAW
CHROMLOOK


Entries renamed:
================

ANALYSIS is renamed GENTOOLS (from Helen Dons-Keller's group at
WashingtonU)

LDB is renamed LDB/LDB+ (form Newton Morton's group)

MAP and MAP+ are combined to MAP/MAP+/MAP+H (from Newton Morton's group)
                                                                        
LINKBASE: a window-based database system designed to manage genetic data
        (by Aki Suomalainen of Finland)
        web: http://www.ktl.fi/molbio/homepgs/aki/linkbase/index.htm

MAPQTL: mapping quantitative trait loci in plants;
        (by Johan W. van Ooijen and Chris Maliepaard, Holland)
        web: http://www.bib.wau.nl/cpro/mapping/


---------------------------WENTIAN LI----------------------------------
lab of statistical genetics       tel: 212-327-7977
rockefeller university, box 192   fax: 212-327-7996
1230 york avenue                  email: wli at linkage.rockefeller.edu
new york, ny 10021                web:http://linkage.rockefeller.edu/wli
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