From: Software for tag single nucleotide polymorphism selection
Program | Block-based? | Estimates blocks itself? | Reads HapMap data? | PLEM incorporates trio data? | Criteria for picking tag SNPsa | Allows 'force in' of special SNPs | Platforms/require software |
---|---|---|---|---|---|---|---|
Haploview | YES | YES | YES | YES | Unknown | No | Java |
Hapblock | YES | YES | NO | YES | Haplotype , pairwise R2, information entropy | Yes | Compiled C program for Win/DOS Unix and Linux |
LDSelect | NO | N/A | NO | N/A | Pairwise R2 | YES | Perl |
htSNP | YES | NO | NO | NO | Allelic , haplotype | NO | Stata + compiled C program (SNPHAP) |
TagIT | YES | NO | NO | YESb | Allelic , haplotype | YES | Matlab |
Tagger | NO | N/A | YES | YES | Pairwise R2, restricted haplotype | YES | Web application |
tagSNPs | YES | NO | YES | YES | Haplotype 2, haplotype , pairwise R2 | YES | Compiled Fortran program for WIN/DOS Unix and Linux |