I got a vcf file of a single chromosome containing about 1121 samples (derived from whole genome sequencing) for phasing by Eagle2, but it returned the below error:
[E: vcf_parse_format] Number of columns at chr9:133255595 does not match the number of samples (1120 vs 1121) Read M= 0 variants Filling in genetic map coordinates using reference file: genetic_map_hg38_withX.txt Segmentation fault
Regarding the vcf file, given the header, the bcftools concat command used on this vcf file.
Could you please kindly help me to solve the issue?
Thanks in advance