MungeSumstats
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liftover not working for certain region
1. Bug description
I am running liftover over a series of LD blocks. It works fine for all chromosomes until chromosome 17, and then after I reach one LD block in chromosome 17, it does not work anymore. It just does not output any coordinates anymore. It was working fine on the same block previously. The coords are just empty
2. Reproducible example
Code
tmp.frq = read.table('tmp.txt
[tmp.txt](https://github.com/neurogenomics/MungeSumstats/files/15144054/tmp.txt)
')
coords = tmp.frq %>%
dplyr::select(CHR, BP, SNP) %>%
MungeSumstats::liftover(
ref_genome = "hg19",
convert_ref_genome = "hg38"
) %>%
shhh() # Perform liftover from hg19 to hg38
Data
Stored in tmp.txt - attached.