cojo
Overview
| Field |
Value |
| Format key |
cojo |
| Spec file |
formats/cojo.json |
| Cite name |
GCTA-COJO |
| Version |
20230807 |
| Source |
https://yanglab.westlake.edu.cn/software/gcta/#COJO |
| Citation |
Yang, J., Ferreira, T., Morris, A. P., Medland, S. E., Madden, P. A., Heath, A. C., ... & Visscher, P. M. (2012). Conditional and joint multiple-SNP analysis of GWAS summary statistics identifies additional variants influencing complex traits. Nature genetics, 44(4), 369-375. |
| ## File layout |
|
| Field |
Value |
| Column order |
SNP, A1, A2, freq, b, se, p, N |
| ## Column mapping |
|
| Raw header |
Canonical |
A1 |
EA |
A2 |
NEA |
b |
BETA |
freq |
EAF |
N |
N |
p |
P |
se |
SE |
SNP |
SNPID |
| ## Coverage |
|
7/9 tier groups satisfied.
| Tier |
Status |
Matched |
Missing |
| Variant ID |
yes |
SNPID |
rsID |
| Genomic location |
no |
— |
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 |
yes |
N |
N_CASE |
| Allele frequency |
yes |
EAF |
MAF, NEAF |
| Imputation / QC |
no |
— |
INFO |
| ## See also |
|
|
|