Hi, all.
In human genome reference 'b37/hs37d5' and 'GRCh37/38'，the mitochondrial genome is rCRS (revised Cambridge Reference Sequence, NC_012920.1), then why MToolBox choose RSRS as the defult mtDNA reference ? If MToolBox input datatype is bam/sam that mapped to 'b37/hs37d5' or 'GRCh37/38'，then I should choose which version mtDNA reference? The differences of RCRS and RSRS are as https://www.mitomap.org/foswiki/bin/view/MITOMAP/MitoSeqs.
And the 'chrM' in hg19, is CRS (NC_001807, 16571 bp). I 'm confused by these references and looking forward to your guidance.
Hi, all. In human genome reference 'b37/hs37d5' and 'GRCh37/38'，the mitochondrial genome is rCRS (revised Cambridge Reference Sequence, NC_012920.1), then why MToolBox choose RSRS as the defult mtDNA reference ? If MToolBox input datatype is bam/sam that mapped to 'b37/hs37d5' or 'GRCh37/38'，then I should choose which version mtDNA reference? The differences of RCRS and RSRS are as https://www.mitomap.org/foswiki/bin/view/MITOMAP/MitoSeqs.
And the 'chrM' in hg19, is CRS (NC_001807, 16571 bp). I 'm confused by these references and looking forward to your guidance.
Thanks a lot. Peggy