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Acore Documentation
Module examples
Overview
Input Formats
Analysis examples
Overview
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
Entire 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
Repository
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.rst
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acore.wgcna_analysis module
acore.wgcna_analysis module
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