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input_gcs.json
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input_gcs.json
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{
"RunCellRegMap.sampleMappingFile": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/all_B_cells/test_inputs/head_100_smf_Bcells.csv",
"RunCellRegMap.featureVariantFile": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/all_B_cells/test_inputs/head_fvf_Bcell_eqtls.csv",
"RunCellRegMap.kinshipFile": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/GRM/grm_wide.csv",
"RunCellRegMap.contextFile": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/all_B_cells/PCs_Bcells.csv.pkl",
"RunCellRegMap.genotypeFiles": {
"1": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr1.bed",
"2": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr2.bed",
"3": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr3.bed",
"4": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr4.bed",
"5": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr5.bed",
"6": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr6.bed",
"7": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr7.bed",
"8": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr8.bed",
"9": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr9.bed",
"10": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr10.bed",
"11": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr11.bed",
"12": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr12.bed",
"13": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr13.bed",
"14": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr14.bed",
"15": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr15.bed",
"16": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr16.bed",
"17": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr17.bed",
"18": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr18.bed",
"19": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr19.bed",
"20": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr20.bed",
"21": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr21.bed",
"22": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr22.bed"
},
"RunCellRegMap.genotypeFilesBims": {
"1": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr1.bim",
"2": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr2.bim",
"3": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr3.bim",
"4": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr4.bim",
"5": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr5.bim",
"6": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr6.bim",
"7": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr7.bim",
"8": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr8.bim",
"9": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr9.bim",
"10": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr10.bim",
"11": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr11.bim",
"12": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr12.bim",
"13": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr13.bim",
"14": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr14.bim",
"15": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr15.bim",
"16": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr16.bim",
"17": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr17.bim",
"18": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr18.bim",
"19": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr19.bim",
"20": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr20.bim",
"21": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr21.bim",
"22": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr22.bim"
},
"RunCellRegMap.genotypeFilesFams": {
"1": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr1.fam",
"2": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr2.fam",
"3": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr3.fam",
"4": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr4.fam",
"5": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr5.fam",
"6": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr6.fam",
"7": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr7.fam",
"8": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr8.fam",
"9": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr9.fam",
"10": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr10.fam",
"11": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr11.fam",
"12": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr12.fam",
"13": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr13.fam",
"14": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr14.fam",
"15": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr15.fam",
"16": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr16.fam",
"17": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr17.fam",
"18": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr18.fam",
"19": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr19.fam",
"20": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr20.fam",
"21": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr21.fam",
"22": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/plink_files/plink_chr22.fam"
},
"RunCellRegMap.phenotypeFiles": {
"1": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce1.h5ad",
"2": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce2.h5ad",
"3": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce3.h5ad",
"4": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce4.h5ad",
"5": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce5.h5ad",
"6": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce6.h5ad",
"7": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce7.h5ad",
"8": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce8.h5ad",
"9": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce9.h5ad",
"10": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce10.h5ad",
"11": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce11.h5ad",
"12": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce12.h5ad",
"13": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce13.h5ad",
"14": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce14.h5ad",
"15": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce15.h5ad",
"16": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce16.h5ad",
"17": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce17.h5ad",
"18": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce18.h5ad",
"19": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce19.h5ad",
"20": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce20.h5ad",
"21": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce21.h5ad",
"22": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/expression_objects/sce22.h5ad"
},
"RunCellRegMap.mafFiles": {
"1": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr1.SNPs.txt",
"2": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr2.SNPs.txt",
"3": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr3.SNPs.txt",
"4": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr4.SNPs.txt",
"5": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr5.SNPs.txt",
"6": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr6.SNPs.txt",
"7": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr7.SNPs.txt",
"8": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr8.SNPs.txt",
"9": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr9.SNPs.txt",
"10": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr10.SNPs.txt",
"11": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr11.SNPs.txt",
"12": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr12.SNPs.txt",
"13": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr13.SNPs.txt",
"14": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr14.SNPs.txt",
"15": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr15.SNPs.txt",
"16": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr16.SNPs.txt",
"17": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr17.SNPs.txt",
"18": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr18.SNPs.txt",
"19": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr19.SNPs.txt",
"20": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr20.SNPs.txt",
"21": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr21.SNPs.txt",
"22": "gs://cpg-tob-wgs-main/scrna-seq/CellRegMap_input_files/snps_with_maf_greaterthan0.05/chr22.SNPs.txt"
}
}