mecfs_bio.constants.gwas_ssf_constants

Column names for the GWAS-SSF v1.0 standard (GWAS Catalog Summary Statistics Format), as emitted in the harmonized .tsv.gz files served from the EBI GWAS Catalog FTP.

These names are a published public standard, not specific to any one deposit, so they live here rather than alongside the CSF-database tasks that happen to be the first consumer.

Attributes:

• GWAS_SSF_BETA_COL –
• GWAS_SSF_CHROM_COL –
• GWAS_SSF_EFFECT_ALLELE_COL –
• GWAS_SSF_EFFECT_ALLELE_FREQ_COL –
• GWAS_SSF_NEG_LOG10_P_COL –
• GWAS_SSF_N_COL –
• GWAS_SSF_OTHER_ALLELE_COL –
• GWAS_SSF_POS_COL –
• GWAS_SSF_RSID_COL –
• GWAS_SSF_SE_COL –
• GWAS_SSF_VARIANT_ID_COL –

GWAS_SSF_BETA_COL module-attribute

GWAS_SSF_BETA_COL = 'beta'

GWAS_SSF_CHROM_COL module-attribute

GWAS_SSF_CHROM_COL = 'chromosome'

GWAS_SSF_EFFECT_ALLELE_COL module-attribute

GWAS_SSF_EFFECT_ALLELE_COL = 'effect_allele'

GWAS_SSF_EFFECT_ALLELE_FREQ_COL module-attribute

GWAS_SSF_EFFECT_ALLELE_FREQ_COL = 'effect_allele_frequency'

GWAS_SSF_NEG_LOG10_P_COL module-attribute

GWAS_SSF_NEG_LOG10_P_COL = 'neg_log_10_p_value'

GWAS_SSF_N_COL module-attribute

GWAS_SSF_N_COL = 'n'

GWAS_SSF_OTHER_ALLELE_COL module-attribute

GWAS_SSF_OTHER_ALLELE_COL = 'other_allele'

GWAS_SSF_POS_COL module-attribute

GWAS_SSF_POS_COL = 'base_pair_location'

GWAS_SSF_RSID_COL module-attribute

GWAS_SSF_RSID_COL = 'rs_id'

GWAS_SSF_SE_COL module-attribute

GWAS_SSF_SE_COL = 'standard_error'

GWAS_SSF_VARIANT_ID_COL module-attribute

GWAS_SSF_VARIANT_ID_COL = 'variant_id'