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REDHORSE- A Software Suite to Detect Recombinations From Next-Generation Sequencing Data		washUlogo




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SYSTEM REQUIREMENTS

REDHORSE Package  

Example Data
Filter SNVs in close proximityIndex of Utilities
Analytical Pipeline

Prerequisites

1) Generate Input Data
2) Find Alleles
3) List Alleles
4) Find SNVs

How to run it?

REDHORSE implements a filter to remove loci where there are more than x snvs in a certain window

java -jar REDHORSE.jar filterSNPsWindow -i C:\AsisKhan\softwareManuscript\data\parentalSNPFiles\VAND.snps -n 7 -p 3 -o C:\AsisKhan\softwareManuscript\data\filteredParentalSNPFiles\VAND.snps

-i is the input SNV file
-n is the window size
-p is the number of SNVs in a window
-0 is the output file

Output

The output of this utility  is in the same format as the SNV file



Index of Utilities
Analytical Pipeline