Closed ilevantis closed 2 years ago
Thanks for this, the issue was with the sort_coords function which didn't include MT as a factor. Surprisingly you are the first to notice (or maybe just mention) this. I guess it's rare that people are working with mitochondrial SNPs.
I've made a fix in version 1.5.12.
Cheers, Alan.
1. Bug description
Chromosome value for SNPs on MT chromosome are converted to
NA
at some point duringformat_sumstats
.Console output
Using
MungeSumstats_1.5.8
:Expected behaviour
CHR column output is
MT
for mitochondrial SNPs.2. Example
3. Session info