Skip to content

ME/CFS Bioinformatics Home

figure_task_list

mecfs_bio.figures.figure_task_list

This file contains a list of figures to be exported for use in documentation

Attributes:

ALL_FIGURE_TASKS (list[Task]) –
CAHOY_CNS_REF –
CORCES_ATAC_REF –
GTEX_BRAIN_REF –
IMMGEN_REF –
MULTI_TISSUE_CHROMATIN_REF –
MULTI_TISSUE_GENE_EXPRESSION_REF –

ALL_FIGURE_TASKS `module-attribute`

ALL_FIGURE_TASKS: list[Task] = [
    DECODE_ME_GWAS_1_MANHATTAN_PLOT,
    DECODE_ME_GWAS_1_HERITABILITY_BY_LDSC_MD,
    DECODE_ME_MAGMA_GENE_PLOT,
    DECODE_ME_MAGMA_GENE_PLOT_WITH_WINDOW,
    MAGMA_DECODE_ME_SPECIFIC_TISSUE_ANALYSIS_BAR_PLOT,
    DECODE_ME_HBA_MAGMA_TASKS.extracted_plot_task,
    DECODE_ME_HBA_MAGMA_TASKS.magma_independent_cluster_plot_unwrap,
    DECODE_ME_S_LDSC.partitioned_tasks[
        MULTI_TISSUE_GENE_EXPRESSION_REF
    ].plot_task_unwrap,
    DECODE_ME_S_LDSC.partitioned_tasks[
        MULTI_TISSUE_CHROMATIN_REF
    ].plot_task_unwrap,
    DECODE_ME_RABGAP1L_REGION_PLOT_37,
    UKBBPPP_RABGAP1L_RABGAP1L_REGION_PLOT_37,
    DECODE_ME_BTN1A1_REGION_PLOT_37,
    BTN1A1_UKBB_PPP_GWAS_PROCESS.plot_task,
    DECODE_ME_GWAS_37_CHR1_174_128_548_FINEMAP_PALINDROMES.susie_stackplot_task,
    DECODE_ME_GWAS_37_CHR1_174_128_548_FINEMAP_PALINDROMES.upset_plot_task,
    DECODE_ME_GWAS_37_CHR6_97_505_620_FINEMAP_PALINDROMES.susie_stackplot_task,
    DECODE_ME_GWAS_37_CHR6_97_505_620_FINEMAP_PALINDROMES.susie_finemap_2_credible_set_plot,
    DECODE_ME_GWAS_37_CHR6_97_505_620_FINEMAP_PALINDROMES.upset_plot_task,
    DECODE_ME_GWAS_37_CHR_15_54_925_638_FINEMAP_PALINDROMES.susie_stackplot_task,
    DECODE_ME_GWAS_37_CHR_15_54_925_638_FINEMAP_PALINDROMES.upset_plot_task,
    DECODE_ME_GWAS_37_CHR17_50_237_377_FINEMAP_PALINDROMES.susie_stackplot_task,
    DECODE_ME_GWAS_37_CHR17_50_237_377_FINEMAP_PALINDROMES.upset_plot_task,
    DECODE_ME_GWAS_37_CHR17_50_237_377_FINEMAP_PALINDROMES.upset_plot_task_pip001,
    DECODE_ME_GWAS_37_CHR20_47_653_000_FINEMAP_PALNDROMES.susie_stackplot_task,
    DECODE_ME_GWAS_37_CHR20_47_653_000_FINEMAP_PALNDROMES.susie_finemap_2_credible_set_plot,
    DECODE_ME_GWAS_37_CHR20_47_653_000_FINEMAP_PALNDROMES.susie_finemap_strict_plot,
    DECODE_ME_GWAS_37_CHR20_47_653_000_FINEMAP_PALNDROMES.upset_plot_task,
    DECODE_ME_GWAS_1_LEAD_VARIANTS_MARKDOWN,
    DECODE_ME_MASTER_GENE_LIST_AS_MARKDOWN,
    DECODE_ME_GWAS_1_MAGMA_GENE_TABLE_MARKDOWN,
    DECODE_ME_HBA_MAGMA_TASKS.independent_clusters_markdown_task_unwrap,
    DECODE_ME_BASIC_CIS_PQTL_MR.md_task,
    DECODE_ME_S_LDSC.partitioned_tasks[
        MULTI_TISSUE_GENE_EXPRESSION_REF
    ].multiple_testing_task_markdown,
    DECODE_ME_S_LDSC.partitioned_tasks[
        MULTI_TISSUE_CHROMATIN_REF
    ].multiple_testing_task_markdown,
    DECODE_ME_S_LDSC.partitioned_tasks[
        IMMGEN_REF
    ].multiple_testing_task_markdown,
    DECODE_ME_S_LDSC.partitioned_tasks[
        CORCES_ATAC_REF
    ].multiple_testing_task_markdown,
    DECODE_ME_S_LDSC.partitioned_tasks[
        CAHOY_CNS_REF
    ].multiple_testing_task_markdown,
    DECODE_ME_S_LDSC.partitioned_tasks[
        GTEX_BRAIN_REF
    ].multiple_testing_task_markdown,
    DECODE_ME_GWAS_37_CHR1_174_128_548_FINEMAP_PALINDROMES.susie_base_credible_set_markdown_table,
    DECODE_ME_GWAS_37_CHR6_97_505_620_FINEMAP_PALINDROMES.susie_base_credible_set_markdown_table,
    DECODE_ME_GWAS_37_CHR6_97_505_620_FINEMAP_PALINDROMES.susie_2_credible_set_markdown_table,
    DECODE_ME_GWAS_37_CHR_15_54_925_638_FINEMAP_PALINDROMES.susie_base_credible_set_markdown_table,
    DECODE_ME_GWAS_37_CHR17_50_237_377_FINEMAP_PALINDROMES.susie_base_credible_set_markdown_table,
    DECODE_ME_GWAS_37_CHR20_47_653_000_FINEMAP_PALNDROMES.susie_base_credible_set_markdown_table,
    DECODE_ME_GWAS_37_CHR20_47_653_000_FINEMAP_PALNDROMES.susie_strict_credible_set_markdown_table,
    POLYFUN_EXPLAIN_CHR1_174.upset_all_polyfun,
    POLYFUN_EXPLAIN_CHR1_174.upset_cs50_polyfun,
    POLYFUN_EXPLAIN_CHR1_174.groups_by_label[
        "l10"
    ].plot_svg,
    POLYFUN_EXPLAIN_CHR1_174.groups_by_label[
        "l10"
    ].detailed_table,
    DECODE_ME_H_MAGMA_ASSET_GENERATOR.labeled_by_annotation()[
        "adult_brain"
    ].gene_manhattan_plot_task,
    DECODE_ME_H_MAGMA_ASSET_GENERATOR.labeled_by_annotation()[
        "cortical_neuron"
    ].gene_manhattan_plot_task,
    DECODE_ME_H_MAGMA_ASSET_GENERATOR.labeled_by_annotation()[
        "fetal_brain"
    ].gene_manhattan_plot_task,
    DECODE_ME_H_MAGMA_ASSET_GENERATOR.labeled_by_annotation()[
        "midbrain_da"
    ].gene_manhattan_plot_task,
    DECODE_ME_H_MAGMA_ASSET_GENERATOR.labeled_by_annotation()[
        "ipsc_derived_astro"
    ].gene_manhattan_plot_task,
    DECODE_ME_H_MAGMA_ASSET_GENERATOR.labeled_by_annotation()[
        "ipsc_derived_neuro"
    ].gene_manhattan_plot_task,
    DECODE_ME_PPP_RG_CIS_EXCLUDED.display_frame_task,
    DECODE_ME_MINUS_PAIN_OLS_GENETIC_CORR_GENERATOR.aggregation_markdown_task,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.magma_gene_manhattan_plot_unwrap,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.magma_tasks.inner.bar_plot_task,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.extracted_plot_task,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.magma_independent_cluster_plot_unwrap,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "adult_brain"
    ].gene_manhattan_plot_task,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "cortical_neuron"
    ].gene_manhattan_plot_task,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "fetal_brain"
    ].gene_manhattan_plot_task,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "midbrain_da"
    ].gene_manhattan_plot_task,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "ipsc_derived_astro"
    ].gene_manhattan_plot_task,
    DECODE_ME_MINUS_PAIN_OLS_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "ipsc_derived_neuro"
    ].gene_manhattan_plot_task,
    CT_LDSC_INITIAL_PLOT,
    BENTHAM_LUPUS_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.extracted_plot_task,
    BENTHAM_LUPUS_STANDARD_ANALYSIS.magma_tasks.inner.bar_plot_task,
    BENTHAM_LUPUS_STANDARD_ANALYSIS.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_CHROMATIN_REF
    ].plot_task_unwrap,
    BENTHAM_LUPUS_STANDARD_ANALYSIS.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_GENE_EXPRESSION_REF
    ].plot_task_unwrap,
    EBV_DNA_STANDARD_ANALYSIS.tasks.hba_magma_tasks_unwrap.extracted_plot_task,
    EBV_DNA_STANDARD_ANALYSIS.tasks.magma_tasks.inner.bar_plot_task,
    EBV_DNA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_CHROMATIN_REF
    ].plot_task_unwrap,
    DECODE_ME_UNIVARIATE_MIXER.power_plot_task,
    DECODE_ME_UNIVARIATE_MIXER.qq_plot_task,
    DECODE_ME_UNIVARIATE_MIXER.result_markdown_table_task,
    DECODE_ME_CURATED_GENE_SET_ANALYSIS.bar_plot_task_full,
    JOHNSTON_ET_AL_UNIVARIATE_MIXER.power_plot_task,
    JOHNSTON_ET_AL_UNIVARIATE_MIXER.qq_plot_task,
    JOHNSTON_ET_AL_UNIVARIATE_MIXER.result_markdown_table_task,
    JOHNSTON_MAGMA_GENE_PLOT,
    JOHNSTON_ET_AL_PAIN_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "adult_brain"
    ].gene_manhattan_plot_task,
    KAMITAKI_ET_AL_STANDARD_ANALYSIS.tasks.hba_magma_tasks_unwrap.extracted_plot_task,
    JOHNSTON_ET_AL_PAIN_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "cortical_neuron"
    ].gene_manhattan_plot_task,
    JOHNSTON_ET_AL_PAIN_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "fetal_brain"
    ].gene_manhattan_plot_task,
    JOHNSTON_ET_AL_PAIN_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "midbrain_da"
    ].gene_manhattan_plot_task,
    JOHNSTON_ET_AL_PAIN_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "ipsc_derived_astro"
    ].gene_manhattan_plot_task,
    JOHNSTON_ET_AL_PAIN_STANDARD_ANALYSIS.h_magma_tasks_unwrap.labeled_by_annotation()[
        "ipsc_derived_neuro"
    ].gene_manhattan_plot_task,
    JOHNSTON_ET_AL_PPP_RG_CIS_EXCLUDED.display_frame_task,
    KAMITAKI_ET_AL_STANDARD_ANALYSIS.tasks.hba_magma_tasks_unwrap.independent_clusters_markdown_task_unwrap,
    KAMITAKI_ET_AL_STANDARD_ANALYSIS.tasks.magma_tasks.inner.bar_plot_task,
    XUE_WHOLE_BRAINSTEM_STANDARD_ANALYSIS.magma_tasks.inner.bar_plot_task,
    XUE_WHOLE_BRAINSTEM_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.extracted_plot_task,
    XUE_WHOLE_BRAINSTEM_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.independent_clusters_markdown_task_unwrap,
    XUE_WHOLE_BRAINSTEM_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.magma_independent_cluster_plot_unwrap,
    XUE_WHOLE_BRAINSTEM_STANDARD_ANALYSIS.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_CHROMATIN_REF
    ].plot_task_unwrap,
    MECFS_PAIN_BIVARIATE_MIXER.result_table_markdown_task,
    MV_LDL_LDSC_RESULTS_MARKDOWN,
    HAPMAP_3_PPP_HERITABILITY_FIGURE_TABLE,
    WILLER_ET_AL_EUR_LDL_STANDARD_ANALYSIS.heritability_markdown_task_unwrap,
    WILLER_ET_AL_EUR_LDL_STANDARD_ANALYSIS.magma_tasks.inner.bar_plot_task,
    WILLER_ET_AL_EUR_LDL_STANDARD_ANALYSIS.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_GENE_EXPRESSION_REF
    ].plot_task_unwrap,
    WILLER_ET_AL_EUR_LDL_STANDARD_ANALYSIS.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_CHROMATIN_REF
    ].plot_task_unwrap,
    WILLER_ET_AL_EUR_TG_STANDARD_ANALYSIS.heritability_markdown_task_unwrap,
    WILLER_ET_AL_EUR_TG_STANDARD_ANALYSIS.magma_tasks.inner.bar_plot_task,
    WILLER_ET_AL_EUR_TG_STANDARD_ANALYSIS.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_GENE_EXPRESSION_REF
    ].plot_task_unwrap,
    SAID_ET_AL_EUR_CRP_STANDARD_ANALYSIS.heritability_markdown_task_unwrap,
    SAID_ET_AL_EUR_CRP_STANDARD_ANALYSIS.heritability_markdown_task_unwrap,
    SAID_ET_AL_EUR_CRP_STANDARD_ANALYSIS.magma_tasks.inner.bar_plot_task,
    MI_LCV_TASK_GROUP.downstream_trait_tables["MI"],
    YENGO_HEIGHT_STANDARD_ANALYSIS.heritability_markdown_task_unwrap,
    MILLION_VETERANS_EUR_MIGRAINE_STANDARD_ANALYSIS.heritability_markdown_task_unwrap,
    MILLION_VETERANS_CFS_STANDARD_ANALYSIS_TASK_GROUP.heritability_markdown_task_unwrap,
    MILLION_VETERANS_CFS_STANDARD_ANALYSIS_TASK_GROUP.magma_tasks.inner.bar_plot_task,
    MIGRAINE_CROSS_STUDY_CT_LDSC_ASSET_GENERATOR.aggregation_markdown_task,
    CFS_CT_LDSC_ASSET_GENERATOR.aggregation_markdown_task,
    NEALE_LAB_CFS_STANDARD_ANALYSIS_TASK_GROUP.heritability_markdown_task_unwrap,
    NEALE_LAB_CFS_STANDARD_ANALYSIS_TASK_GROUP.magma_tasks.inner.bar_plot_task,
    CT_LDSC_LDL.aggregation_markdown_task,
    UK_BIOBANK_2025_EUR_MIGRAINE_STANDARD_ANALYSIS.magma_tasks.inner.bar_plot_task,
    UK_BIOBANK_2025_EUR_MIGRAINE_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.extracted_plot_task,
    UK_BIOBANK_2025_EUR_MIGRAINE_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.independent_clusters_markdown_task_unwrap,
    UK_BIOBANK_2025_EUR_MIGRAINE_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.magma_independent_cluster_plot_unwrap,
    UK_BIOBANK_2025_EUR_MIGRAINE_STANDARD_ANALYSIS.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_GENE_EXPRESSION_REF
    ].plot_task_unwrap,
    UK_BIOBANK_2025_EUR_MIGRAINE_STANDARD_ANALYSIS.heritability_markdown_task_unwrap,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_GENE_EXPRESSION_REF
    ].plot_task_unwrap,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_GENE_EXPRESSION_REF
    ].multiple_testing_task_markdown,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_CHROMATIN_REF
    ].plot_task_unwrap,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        MULTI_TISSUE_CHROMATIN_REF
    ].multiple_testing_task_markdown,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        IMMGEN_REF
    ].plot_task_unwrap,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        IMMGEN_REF
    ].multiple_testing_task_markdown,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        CORCES_ATAC_REF
    ].multiple_testing_task_markdown,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        GTEX_BRAIN_REF
    ].multiple_testing_task_markdown,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.sldsc_tasks.partitioned_tasks[
        CAHOY_CNS_REF
    ].multiple_testing_task_markdown,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.magma_gene_manhattan_plot_unwrap,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.magma_tasks.inner.bar_plot_task,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.heritability_markdown_task_unwrap,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.hba_magma_tasks_unwrap.magma_independent_cluster_plot_unwrap,
    SEROPOSITIVE_RA_STANDARD_ANALYSIS.tasks.hba_magma_tasks_unwrap.extracted_plot_task,
    SEROPOSITIVE_RA_PPP_RG_TASKS_CIS_EXCLUDED.display_frame_task,
    SERONEGATIVE_RA_STANDARD_ANALYSIS.tasks.magma_gene_manhattan_plot_unwrap,
    SERONEGATIVE_RA_STANDARD_ANALYSIS.tasks.magma_tasks.inner.bar_plot_task,
    SERONEGATIVE_RA_STANDARD_ANALYSIS.tasks.heritability_markdown_task_unwrap,
    SERONEGATIVE_RA_STANDARD_ANALYSIS.tasks.hba_magma_tasks_unwrap.extracted_plot_task,
    KEATON_DBP_PPP_RG_CIS_EXCLUDED.display_frame_task,
    MV_MI_PPP_RG_CIS_EXCLUDED.display_frame_task,
    BELLENGUEZ_PPP_RG_CIS_EXCLUDED.display_frame_task,
    PGC2022_SCH_PPP_RG_CIS_EXCLUDED.display_frame_task,
    ASTHMA_PPP_RG_CIS_EXCLUDED.display_frame_task,
    KERREBIJN_ET_AL_FIBRO_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.magma_independent_cluster_plot_svg_unwrap,
    KERREBIJN_ET_AL_FIBRO_STANDARD_ANALYSIS.hba_magma_tasks_unwrap.extracted_plot_task,
    KERREBEIJIN_ET_AL_PPP_RG_CIS_EXCLUDED.display_frame_task,
]

CAHOY_CNS_REF `module-attribute`

CAHOY_CNS_REF = 'cahoy_cns'

CORCES_ATAC_REF `module-attribute`

CORCES_ATAC_REF = 'corces_atac'

GTEX_BRAIN_REF `module-attribute`

GTEX_BRAIN_REF = 'gtex_brain'

IMMGEN_REF `module-attribute`

IMMGEN_REF = 'immgen'

MULTI_TISSUE_CHROMATIN_REF `module-attribute`

MULTI_TISSUE_CHROMATIN_REF = 'multi_tissue_chromatin'

MULTI_TISSUE_GENE_EXPRESSION_REF `module-attribute`

MULTI_TISSUE_GENE_EXPRESSION_REF = (
    "multi_tissue_gene_expression"
)