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.gitignore
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resources/seurat.cer.final.rds
resources/seurat.pfc.final.rds
resources/seurat.tha.final.rds
resources/seurat.wge.final.rds
resources/seurat.hip.final.rds
resources/figshare_files/
results/GWAS_for_ldsc/
results/LDSR_annotation_files/
results/LDSR_part_herit/baseline_v1.2/
results/q10_gene_lists_for_LDSC/all_quantiles/
results/magma_celltyping/HEIGHT_hg19_magma_ready.sumstats.tsv.10UP.1.5DOWN/
results/magma_celltyping/SCZ_hg19_magma_ready.sumstats.tsv.10UP.1.5DOWN/
results/magma_celltyping/ASD_hg19_magma_ready.sumstats.tsv.10UP.1.5DOWN/
results/SVM/FC/CV_folds.RData
results/SVM/FC/CV_folds.log
results/SVM/FC/SVM/
results/SVM/FC/evaluation/Confusion/
results/SVM/FC/evaluation/PopSize/
results/SVM/FC/evaluation/SVM.log
results/SVM/FC/evaluation/Summary/
results/SVM/FC/rank_genes_dropouts.csv
results/SVM/FC/rank_genes_dropouts.log
results/SVM/FC/test
results/SVM/cer/CV_folds.RData
results/SVM/cer/CV_folds.log
results/SVM/cer/SVM/
results/SVM/cer/evaluation/Confusion/
results/SVM/cer/evaluation/PopSize/
results/SVM/cer/evaluation/SVM.log
results/SVM/cer/evaluation/Summary/
results/SVM/cer/rank_genes_dropouts.csv
results/SVM/cer/rank_genes_dropouts.log
results/SVM/cer/test
results/SVM/hip/CV_folds.RData
results/SVM/hip/CV_folds.log
results/SVM/hip/SVM/
results/SVM/hip/evaluation/Confusion/
results/SVM/hip/evaluation/PopSize/
results/SVM/hip/evaluation/SVM.log
results/SVM/hip/evaluation/Summary/
results/SVM/hip/rank_genes_dropouts.csv
results/SVM/hip/rank_genes_dropouts.log
results/SVM/hip/test
results/SVM/tha/CV_folds.RData
results/SVM/tha/CV_folds.log
results/SVM/tha/SVM/
results/SVM/tha/evaluation/Confusion/
results/SVM/tha/evaluation/PopSize/
results/SVM/tha/evaluation/SVM.log
results/SVM/tha/evaluation/Summary/
results/SVM/tha/rank_genes_dropouts.csv
results/SVM/tha/rank_genes_dropouts.log
results/SVM/tha/test
results/SVM/wge/CV_folds.RData
results/SVM/wge/CV_folds.log
results/SVM/wge/SVM/
results/SVM/wge/evaluation/Confusion/
results/SVM/wge/evaluation/PopSize/
results/SVM/wge/evaluation/SVM.log
results/SVM/wge/evaluation/Summary/
results/SVM/wge/rank_genes_dropouts.csv
results/SVM/wge/rank_genes_dropouts.log
results/SVM/wge/test
results/gene_lists/q10_gene_lists/all_q10s/
results/gene_lists/q10_gene_lists/all_quantiles/
workflow/.snakemake/
magma_all_sig_and_skene_condition_FC_ExN_2.gsa.genes.out
magma_all_sig_and_skene_condition_skene_InN.gsa.sets.genes.out
magma_all_sig_and_skene_condition_skene_InN.log
magma_all_sig_and_skene_condition_FC_ExN_2.gsa.sets.genes.out
magma_all_sig_and_skene_condition_skene_MSN.gsa.genes.out
magma_all_sig_and_skene_condition_FC_ExN_2.log
magma_all_sig_and_skene_condition_skene_CA1.gsa.genes.out
magma_all_sig_and_skene_condition_skene_MSN.gsa.sets.genes.out
magma_all_sig_and_skene_condition_skene_MSN.log
magma_all_sig_and_skene_condition_skene_CA1.gsa.sets.genes.out
magma_all_sig_and_skene_condition_skene_SS.gsa.genes.out
magma_all_sig_and_skene_condition_skene_CA1.log
magma_all_sig_and_skene_condition_skene_InN.gsa.genes.out
magma_all_sig_and_skene_condition_skene_SS.gsa.sets.genes.out
magma_all_sig_and_skene_condition_skene_SS.log
results/magma_conditional/magma_all_sig_and_skene_condition_FC_ExN_2.gsa.sets.genes.out
results/magma_conditional/magma_all_sig_and_skene_condition_FC_ExN_2.log
results/snRNAseq_CR5_190121/
results/logs
.snakemake/
resources/R_objects/
resources/ldsc/
resources/magma_celltyping/
resources/refdata-gex-GRCh38-2020-A/
resources/scRNAseq_Benchmark/
resources/sheets/snRNAseq_cluster_labels_cer_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_hip_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_pfc_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_rand_cer_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_rand_hip_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_rand_pfc_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_rand_tha_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_rand_wge_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_tha_for_SVM.csv
resources/sheets/snRNAseq_cluster_labels_wge_for_SVM.csv
resources/sheets/snRNAseq_raw_counts_cer_final.csv
resources/sheets/snRNAseq_raw_counts_hip_final.csv
resources/sheets/snRNAseq_raw_counts_pfc_final.csv
resources/sheets/snRNAseq_raw_counts_tha_final.csv
resources/sheets/snRNAseq_raw_counts_wge_final.csv