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config.yaml
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config.yaml
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GWAS:
- Kunkle_2019
- Nalls23andMe_2019
- Bellenguez_2021_hg19
annotation_build:
- "hg19"
inFolder:
- /sc/arion/projects/ad-omics/ashvin/nott_annotations
prefix:
# - hg19_decoy_GENCODE_SUPPA_SE_lead_snps_q0.05.bed
# - hg19_decoy_union_SUPPA_RI_lead_snps_q0.05.bed
# - hg19_decoy_GENCODE_expression_lead_snps_q0.05.bed
# - hg19_decoy_GENCODE_transcript_lead_snps_q0.05.bed
# - hg19_decoy_union_SUPPA_SE_lead_snps_q0.05.bed
# - hg19_decoy_GENCODE_leafcutter_lead_snps_q0.05.bed
# - hg19_decoy_union_expression_lead_snps_q0.05.bed
# - hg19_decoy_union_transcript_lead_snps_q0.05.bed
# - hg19_decoy_GENCODE_SUPPA_A3_lead_snps_q0.05.bed
# - hg19_decoy_union_leafcutter_lead_snps_q0.05.bed
# - hg19_decoy_GENCODE_SUPPA_A5_lead_snps_q0.05.bed
# - hg19_decoy_union_SUPPA_A3_lead_snps_q0.05.bed
# - hg19_decoy_GENCODE_SUPPA_AF_lead_snps_q0.05.bed
# - hg19_decoy_union_SUPPA_A5_lead_snps_q0.05.bed
# - hg19_decoy_GENCODE_SUPPA_AL_lead_snps_q0.05.bed
# - hg19_decoy_union_SUPPA_AF_lead_snps_q0.05.bed
# - hg19_decoy_GENCODE_SUPPA_RI_lead_snps_q0.05.bed
# - hg19_decoy_union_SUPPA_AL_lead_snps_q0.05.bed
#- hg19_caQTL_lead_SNPs
#- new_cryptics.junctions_hg19.bed
#- changing_sig.junctions_hg19.bed
- Microglia_promoters
- Astrocyte_promoters
- Astrocyte_enhancers
- Oligo_promoters
- Oligo_enhancers
- Neuronal_promoters
- Neuronal_enhancers
- Microglia_enhancers
gwas_inputfile:
- Nott.ldcts
outFolder:
- AD_enrichment_results