Task

Name

Licence

Packaging

Importance

Primer design

TagGenerator

GPL

depends on ?BioPerl and ncbi-blast

free

In Silico PCR

ipcress

LGPL

part of the exonerate package

free

Primer design and in silico PCR

yamPCR

no licence

Depends on bioperl, blast2, primer3 (to be patched)

sounds powerful... and power-hungry

Primer Design across exon-intron junctions, uses Primer3 and BLAT

ExonPrimer

no licence

Webpage Javascript

Free

Oligo Properties Calculator for ?TaqMan and SYBR Green oligos

[javascript:void(0);/*1232001073765*/ Beacon Designer (Free Edition)]

no licence

Webpage Javascript

Free

Primer design

primou

not found

Oligonucleotide analysis

Oligonucleotide properties calculator

free distribution for education and non-commercial

javascript web page

available on the web anyway

Oligonucleotide analysis

probemaker

GPL

java

free

Synthethic gene design

GeneDesign

none?

perl CGI

Analysis of bisulphite PCR results

BiQ Analyzer

redistribution is forbiden

disallowed

no packaging

Normalisation of qPCR

Normfinder

Not found

R script

RNA secondary structure visualization

jViz.Rna

GPL (to clarify)

java

seems useful

Molecular structure visualisation

?QuteMol

GPL

free

not important

Epitope mapping

PepSurf

not found

looks easy

Task

Name

Licence

Packaging

Importance