New additions to "genetic analysis software"
wentian li
wli at linkage.rockefeller.edu
Fri Jun 27 12:09:00 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
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/
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)
---------------------------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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