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config.yaml
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##### RESOURCES #####
mem: '32000'
threads: 2
##### GENERAL #####
project_name: "MrBiomics"
#### Datasets and Workflows to include ###
workflows:
quickstart:
enrichment_analysis: "config/quickstart/quickstart_enrichment_analysis_config.yaml"
# digits:
# unsupervised_analysis: "config/digits/digits_unsupervised_analysis_config.yaml"
# CorcesRNA:
# fetch_ngs: "config/CorcesRNA/CorcesRNA_fetch_ngs_config.yaml"
# rnaseq_pipeline: "config/CorcesRNA/CorcesRNA_rnaseq_pipeline_config.yaml"
# genome_tracks: "config/CorcesRNA/CorcesRNA_genome_tracks_config.yaml"
# spilterlize_integrate: "config/CorcesRNA/CorcesRNA_spilterlize_integrate_config.yaml"
# unsupervised_analysis: "config/CorcesRNA/CorcesRNA_unsupervised_analysis_config.yaml"
# dea_limma: "config/CorcesRNA/CorcesRNA_dea_limma_config.yaml"
# enrichment_analysis: "config/CorcesRNA/CorcesRNA_enrichment_analysis_config.yaml"
# CorcesATAC:
# fetch_ngs: "config/CorcesATAC/CorcesATAC_fetch_ngs_config.yaml"
# atacseq_pipeline: "config/CorcesATAC/CorcesATAC_atacseq_pipeline_config.yaml"
# genome_tracks: "config/CorcesATAC/CorcesATAC_genome_tracks_config.yaml"
# spilterlize_integrate: "config/CorcesATAC/CorcesATAC_spilterlize_integrate_config.yaml"
# unsupervised_analysis: "config/CorcesATAC/CorcesATAC_unsupervised_analysis_config.yaml"
# dea_limma: "config/CorcesATAC/CorcesATAC_dea_limma_config.yaml"
# enrichment_analysis: "config/CorcesATAC/CorcesATAC_enrichment_analysis_config.yaml"
# CorcesINT:
# spilterlize_integrate: "config/CorcesINT/CorcesINT_spilterlize_integrate_config.yaml"
# unsupervised_analysis: "config/CorcesINT/CorcesINT_unsupervised_analysis_config.yaml"
# dea_limma: "config/CorcesINT/CorcesINT_dea_limma_config.yaml"
# enrichment_analysis: "config/CorcesINT/CorcesINT_enrichment_analysis_config.yaml"
# Papalexi2021scCRISPR:
# scrnaseq_processing_seurat: "config/Papalexi2021scCRISPR/Papalexi2021scCRISPR_scrnaseq_processing_seurat_config.yaml"
# mixscape_seurat: "config/Papalexi2021scCRISPR/Papalexi2021scCRISPR_mixscape_seurat_config.yaml"
# unsupervised_analysis: "config/Papalexi2021scCRISPR/Papalexi2021scCRISPR_unsupervised_analysis_config.yaml"
# dea_seurat: "config/Papalexi2021scCRISPR/Papalexi2021scCRISPR_dea_seurat_config.yaml"
# enrichment_analysis: "config/Papalexi2021scCRISPR/Papalexi2021scCRISPR_enrichment_analysis_config.yaml"