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SNP/INDEL Discovery Pipeline

SNP/INDEL Discovery Pipeline based on CAP3 assembly or How to find thousand polymorphic sites in EST assembly in 24 steps.
GenoPlayer

Genome Visualization tool:
Program for Visualizing and Querying Genetic Data.
GenomePixelizer

Genome Visualization tool:
designed to display genomes in a linear form and show the relationships between genes.
PhyloGrapher

Graph Drawing tool:
designed to visualize and study evolutionary relationships within families of homologous genes or proteins (elements).
Blast Parser

How to obtain a Distance Matrix File from BLAST search results and use it for sequence clustering analysis. It is designed to display genomes in a linear form and show the relationships between genes.
MadMapper

This script was designed to calculate recombination scores for a set of RILs (Recombination Inbred Lines); it does group (clustering) analysis finding different linkage groups based on raw marker scores.
Pixelirator

Pixelirator is a program to draw image by using predefined the configuration and the color schema files. It generates PNG formatted images from text files of data.
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