I have GRCh37-aligned BAM files and I want to run local re-alignment with GATK.
Where do I find the GRCh37 resource bundles that should contain some required input for local realignment such as known-site information (Mills_and_1000G_gold_standard.indels.X.sites.vcf; 1000G_phase1.snps.high_confidence.X.sites.vcf; and dbsnp_138.X.vcf.gz)?
I only found resource bundles for hg19 and b37 for this human version. If bundles are not available for GRCh37, can I use the b37 bundles instead?
Thanks for your help.
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