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Evaluating a Read Mapper on Simulated Data

807 bytes added, 13:48, 8 February 2010
Available Test Datasets
== Available Test Datasets ==
 
*Location: wonderland:~zhanxw/BigSimulation
*Scenarios:
no polymorphism ;
1, 2, 3 SNP ;
Deletion 5, 30, 200;
Insertion 5, 30
* Quality String
Picked the 75 percentile of Sanger Iluumina 108 mer test data set
* Format
both base space and color space
both single end and paired end
* Program
generator
 
Usage:
generator [bs|cs] [se|pe] [exact|snpXX|indelXX|delXX] -n numbers -l readLength -i insertSize
exact: Accurate sample from reference genome
snpXX: Bring total XXX SNP for a single read or a pair of reads
indelXX: Insert a random XX-length piece for a single read, or at the same position for a paired reads
delXX: Delete a random XX-length piece for a single read, or at the same position for a paired reads
 
e.g. ./generator bs se exact -n 100 -l 35
255
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