mecfs_bio.asset_generator

Convenience functions to generate multiple related Tasks.

Modules:

• annovar_37_basic_rsid_assignment –

  Asset generator for assigning RSIDS to genome build-37 GWS datasets.

• concrete_magma_asset_generator –

  Generates MAGMA tasks using standard reference data

• concrete_sldsc_generator –

  Asset generator for applying S-LDSC using standard reference datasets.

• concrete_standard_analysis_task_generator –

  Task generators that apply a collection of standard analysis techniques to GWAS summary statistics using standard reference data.

• fine_mapping_asset_generator –

  Asset generator for fine mapping with SUSIE

• genetic_correlation_asset_generator –

  Task generator that, given a list of tasks that generate gwaslab sumstats,

• hba_magma_asset_generator –

  Asset generator for applying MAGMA gene property analysis using the Human Brain Atlas scRNAseq data as a reference.

• labeled_lead_variants_asset_generator –

  Asset generator to find lead variants of a GWAS using gwaslab.

• mixer_asset_generator –

  Asset generator to use the MiXeR Gaussian mixture to model the genetic architecture of a trait.

• mr_with_cis_pqtl_asset_generator –

  Asset generator for applying Mendelian Randomization using cis-pQTLs from the UK Biobank

• ukbb_broad_ld_matrix_generator –

  Asset generator to automatically determine the optimal UKBB LD matrix to use for fine-mapping

• ukbb_ppp_single_gwas_generator –

  Asset generator for downloading and preprocessing data from the UK Biobank Pharma Proteomics Project.