diff --git a/README.md b/README.md index e6b89bb..ae5bc4f 100644 --- a/README.md +++ b/README.md @@ -206,6 +206,24 @@ Todo: Credible set analysis results used to link index variants to tag variants. Full finemapping methods can be seen here: https://github.com/opentargets/finemapping +##### Parquet meta info + +``` +file schema: schema +-------------------------------------------------------------------------------- +study_id: OPTIONAL BINARY L:STRING R:0 D:1 +lead_chrom: OPTIONAL BINARY L:STRING R:0 D:1 +lead_pos: OPTIONAL INT64 R:0 D:1 +lead_ref: OPTIONAL BINARY L:STRING R:0 D:1 +lead_alt: OPTIONAL BINARY L:STRING R:0 D:1 +tag_chrom: OPTIONAL BINARY L:STRING R:0 D:1 +tag_pos: OPTIONAL INT64 R:0 D:1 +tag_ref: OPTIONAL BINARY L:STRING R:0 D:1 +tag_alt: OPTIONAL BINARY L:STRING R:0 D:1 +log10_ABF: OPTIONAL DOUBLE R:0 D:1 +posterior_prob: OPTIONAL DOUBLE R:0 D:1 +``` + ##### Finemapping table columns - `study_id`: unique identifier for study - `index_variantid_b37`: unique variant identifier for index variant, chrom_pos_ref_alt (build 37) @@ -227,6 +245,28 @@ Steps Table of LD values linking index varaints to tag variants. +##### Parquet meta info + +``` +file schema: schema +-------------------------------------------------------------------------------- +study_id: OPTIONAL BINARY L:STRING R:0 D:1 +lead_chrom: OPTIONAL BINARY L:STRING R:0 D:1 +lead_pos: OPTIONAL INT64 R:0 D:1 +lead_ref: OPTIONAL BINARY L:STRING R:0 D:1 +lead_alt: OPTIONAL BINARY L:STRING R:0 D:1 +tag_chrom: OPTIONAL BINARY L:STRING R:0 D:1 +tag_pos: OPTIONAL INT64 R:0 D:1 +tag_ref: OPTIONAL BINARY L:STRING R:0 D:1 +tag_alt: OPTIONAL BINARY L:STRING R:0 D:1 +overall_r2: OPTIONAL DOUBLE R:0 D:1 +AFR_1000G_prop: OPTIONAL DOUBLE R:0 D:1 +AMR_1000G_prop: OPTIONAL DOUBLE R:0 D:1 +EAS_1000G_prop: OPTIONAL DOUBLE R:0 D:1 +EUR_1000G_prop: OPTIONAL DOUBLE R:0 D:1 +SAS_1000G_prop: OPTIONAL DOUBLE R:0 D:1 +``` + ##### LD table columns - `study_id`: unique identifier for study - `index_variantid_b37`: unique variant identifier for index variant, chrom_pos_ref_alt (build 37)