API#
- DonorData
- Preprocessing
pp - Input-Output
io - Tools
tl- cellink.tl.get_snp_df
- cellink.tl.run_favor
- cellink.tl.run_snpeff
- cellink.tl.run_vep
- cellink.tl.add_vep_annos_to_gdata
- cellink.tl.combine_annotations
- cellink.tl.aggregate_annotations_for_varm
- cellink.tl.run_burden_test
- cellink.tl.run_skat_test
- cellink.tl.beta_weighting
- cellink.tl.subset_genomic_region
- cellink.tl.subset_gene
- cellink.tl.coloc_abf
- cellink.tl.coloc_susie
- External tools
tl.external - Plotting
- Machine Learning
ml - Association Testing
at - Utils
- Resources
- cellink.resources.get_1000genomes
- cellink.resources.get_1000genomes_grch38
- cellink.resources.get_dummy_onek1k
- cellink.resources.get_onek1k
- cellink.resources.get_eqtl_catalog_datasets
- cellink.resources.get_eqtl_catalog_dataset_associations
- cellink.resources.get_eqtl_catalog_credible_sets
- cellink.resources.get_eqtl_catalog_lbf
- cellink.resources.get_gwas_catalog_studies
- cellink.resources.get_gwas_catalog_study
- cellink.resources.get_gwas_catalog_study_summary_stats
- cellink.resources.liftover_gwas_summary_stats
- cellink.resources.get_pgs_catalog_score
- cellink.resources.get_pgs_catalog_scores
- cellink.resources.get_1000genomes_ld_scores
- cellink.resources.get_1000genomes_ld_weights
- cellink.resources.get_1000genomes_plink_files
- cellink.resources.get_1000genomes_frq
- cellink.resources.get_1000genomes_hapmap3
- cellink.resources.merge_1000g_plink_chromosomes
- PGEN → AnnData Conversion (
cellink-pgen)