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  • GitHub
  • Acore Documentation

API usage examples

  • Metabolomics data filtering
  • Normalization of samples
  • Batch correction of samples
  • Imputation data (MS-example)
  • Imputation (Metabolomics example)
  • Exploratory Analysis
  • Metabolomics drift correction
  • Differential regulation: T-test for two groups
  • Differential regulation: ANOVA across more than two groups and posthoc t-tests
  • Differential regulation: ANCOVA for two groups
  • Enrichment analysis

Reanalysis

  • Data Analysis PXD040621

Example dataset (preprocessing)

  • Use proteomics data from PRIDE Data (adipose tissue)
  • Download from journal (ovarian cancer proteome)
  • Alzheimer’s MS-based proteomics
  • MTBLS13411

Modules

  • acore package
    • acore.batch_correction package
    • acore.correlation_analysis package
    • acore.decomposition package
      • acore.decomposition.pca module
      • acore.decomposition.umap module
    • acore.differential_regulation package
      • acore.differential_regulation.format_test_table module
      • acore.differential_regulation.tests module
    • acore.drift_correction package
      • acore.drift_correction.cpca_drift_correction module
      • acore.drift_correction.loess_drift_correction module
    • acore.enrichment_analysis package
      • acore.enrichment_analysis.statistical_tests namespace
        • acore.enrichment_analysis.statistical_tests.fisher module
        • acore.enrichment_analysis.statistical_tests.kolmogorov_smirnov module
      • acore.enrichment_analysis.annotate module
    • acore.exploratory_analysis package
    • acore.filter_metabolomics package
    • acore.imputation_analysis package
    • acore.io package
      • acore.io.uniprot package
        • acore.io.uniprot.uniprot module
      • acore.io.download module
      • acore.io.ftp module
      • acore.io.kegg module
      • acore.io.pride module
      • acore.io.uncompress module
    • acore.kaplan_meier_analysis package
    • acore.multiple_testing package
    • acore.network_analysis package
    • acore.normalization package
      • acore.normalization.strategies module
    • acore.power_analysis package
    • acore.publications_analysis package
    • acore.sklearn package
    • acore.tda_analysis package
    • acore.types package
      • acore.types.differential_analysis module
      • acore.types.enrichment_analysis module
      • acore.types.exploratory_analysis module
    • acore.utils module
    • acore.wgcna_analysis module

MISC:

  • LLM documentation
  • Contributing
  • Credits
  • History
  • Docs creation

Python Module Index

a
 
a
- acore
    acore.batch_correction
    acore.correlation_analysis
    acore.decomposition
    acore.decomposition.pca
    acore.decomposition.umap
    acore.differential_regulation
    acore.differential_regulation.format_test_table
    acore.differential_regulation.tests
    acore.drift_correction
    acore.drift_correction.cpca_drift_correction
    acore.drift_correction.loess_drift_correction
    acore.enrichment_analysis
    acore.enrichment_analysis.annotate
    acore.enrichment_analysis.statistical_tests
    acore.enrichment_analysis.statistical_tests.fisher
    acore.enrichment_analysis.statistical_tests.kolmogorov_smirnov
    acore.exploratory_analysis
    acore.filter_metabolomics
    acore.imputation_analysis
    acore.io
    acore.io.download
    acore.io.ftp
    acore.io.kegg
    acore.io.pride
    acore.io.uncompress
    acore.io.uniprot
    acore.io.uniprot.uniprot
    acore.kaplan_meier_analysis
    acore.multiple_testing
    acore.network_analysis
    acore.normalization
    acore.normalization.strategies
    acore.power_analysis
    acore.publications_analysis
    acore.sklearn
    acore.tda_analysis
    acore.types
    acore.types.differential_analysis
    acore.types.enrichment_analysis
    acore.types.exploratory_analysis
    acore.utils
    acore.wgcna_analysis

By Multi-omics Network Analytics Group, Sebastián Ayala Ruano, Henry Webel, Alberto Santos

© Copyright 2026, Multi-omics Network Analytics Group.