源码阅读网APM监控项目特训营

#a second pass to analyze covariation remaining after recalibartion java -jar $GATK \     -T BaseRecalibrator \     -R $DB/hg19.fa \     -I dedup_sample1.bam \     -L chr22 \       -knownSites $DB/dbsnp_138.hg19.vcf \     -knownSites $DB/Mills_and_1000G_gold_standard.indels.hg19.sites.vcf \     -knownSites $DB/1000G_phase1.indels.hg19.sites.vcf \     -BQSR recal_data_sample1.table     -o post_recal_data_sample1.table