Tag: Picker

REPK 1.3 – Restriction Enzyme Picker

REPK 1.3

:: DESCRIPTION

REPK (Restriction Endonuclease Picker) finds sets of 4 commercially available restriction endonucleases which together uniquely differentiate designated sequence groups from a supplied FASTA format sequence file for use in T-RFLP. If you have a database of known sequences from an environment, this program could be useful to pick some enzymes that uniquely discriminate the different groups in your database.

::DEVELOPER

the Rocap lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/MacOsX

:: DOWNLOAD

 REPK

:: MORE INFORMATION

Citation:

Collins, R. E. and G. Rocap. 2007.
REPK: an analytical web server to select restriction endonucleases for terminal restriction fragment length polymorphism analysis.
Nucleic Acids Res. 35 (Database issue): W58-W62; doi:10.1093/nar/gkm384

 

mPopTag – Multi-Population Tag SNP Picker

mPopTag

:: DESCRIPTION

mPopTag (Multi-Population Tag SNP Picker) is a tool used to select or evaluate linkage disequilibrium (LD) tag SNPs for multiple populations. The program analyzes patterns of LD–measured by composite linkage disequilibrium (CLD) or r2–between polymorphic sites in a genome region for multiple populations. It also uses an agreedy algorithm to select a single set of near-minimum numbers of LD tag SNPs for multiple populations.

::DEVELOPER

Jack A. Taylor, M.D., Ph.D. , Zongli Xu, Ph.D.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 mPopTag

:: MORE INFORMATION

Citation:

Xu Z, Kaplan NL, Taylor JA.
Tag SNP selection for candidate gene association studies using HapMap and gene resequencing data.
Eur J Hum Genet 2007 Oct;15(10):1063-70.

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