.stats
Overview
| Field |
Value |
| Format key |
bolt_lmm |
| Spec file |
formats/bolt_lmm.json |
| Cite name |
BOLT-LMM |
| Version |
v2.4 (July 22, 2022) |
| Source |
https://alkesgroup.broadinstitute.org/BOLT-LMM/BOLT-LMM_manual.html |
| Citation |
Loh, P. R., Tucker, G., Bulik-Sullivan, B. K., Vilhjalmsson, B. J., Finucane, H. K., Salem, R. M., ... & Price, A. L. (2015). Efficient Bayesian mixed-model analysis increases association power in large cohorts. Nature genetics, 47(3), 284-290. |
| ## Column mapping |
|
| Raw header |
Canonical |
A1FREQ |
EAF |
ALLELE0 |
NEA |
ALLELE1 |
EA |
BETA |
BETA |
BP |
POS |
CHISQ_BOLT_LMM |
CHISQ |
CHR |
CHR |
INFO |
INFO |
P_BOLT_LMM |
P |
SE |
SE |
SNP |
SNPID |
| ## Coverage |
|
8/9 tier groups satisfied.
| Tier |
Status |
Matched |
Missing |
| Variant ID |
yes |
SNPID |
rsID |
| Genomic location |
yes |
CHR, POS |
— |
| Effect / other allele |
yes |
EA, NEA |
— |
| Effect size |
yes |
BETA |
OR, HR, Z |
| Uncertainty |
yes |
SE |
— |
| P-value |
yes |
P |
MLOG10P |
| Sample size |
no |
— |
N, N_CASE |
| Allele frequency |
yes |
EAF |
MAF, NEAF |
| Imputation / QC |
yes |
INFO |
— |
| ## See also |
|
|
|