Mouse Dbsnp Database For Quality Score Recalibration From Gatk

Question

[Tonyzeng]

Does anybody know where to download mouse dbsnp database for quality score recalibration from GATK (commands are as below but using human dbsnp132.txt.

Thank you!

$java -Xmx4g -jar GenomeAnalysisTK.jar -l INFO -R genome.fa --DBSNP dbsnp132.txt -I K1.marked.realigned.fixed.bam -T CountCovariates -cov ReadGroupCovariate -cov QualityScoreCovariate -cov CycleCovariate -cov DinucCovariate -recalFile k1.recal_data.csv

[Tonyzeng]

sorry I just found that latest version for the GATL(2.7) does not use CountCovariates but use BaseRecalibrator, the commands in my post does not work anymore.