Analyze DNA methylation data from Illumina arrays and bisulfite sequencing.
npx skills add https://github.com/inflexa-ai/inflexa --skill dna-methylation
Please help me install this Agent Skill. Skill: dna-methylation Source: https://github.com/inflexa-ai/inflexa/tree/main/skills/dna-methylation Command: npx skills add https://github.com/inflexa-ai/inflexa --skill dna-methylation
This Skill addresses the complexity of processing and analyzing DNA methylation data, providing a structured approach to handle array-based and sequencing-based methylation studies while avoiding common statistical pitfalls.
Use the dna-methylation skill to perform differential methylation analysis on your normalized beta matrix and generate a report of significant DMPs and DMRs.
High-intent search queries and answers about installing and using this skill.
Differential methylation analysis identifies DMRs from EPIC array data by processing IDAT files, normalizing beta values, and applying rigorous statistical modeling using M-values with covariate adjustment.
Epigenome-wide association studies (EWAS) can adjust for cell type composition by using deconvolution modules to estimate proportions, ensuring differentially methylated positions reflect biologically relevant signals rather than cellular heterogeneity.
Epigenetic age prediction calculates biological age from DNA methylation data by applying specialized clock algorithms to normalized methylation matrices, providing reproducible age estimates for biomarker research.
The DNA methylation pipeline supports both Illumina methylation arrays and bisulfite sequencing data, providing standardized workflows for IDAT processing, normalization, and differential methylation analysis across both platforms.
Handling batch effects in DNA methylation analysis requires rigorous statistical modeling using M-values and covariate adjustment within the normalization pipeline, ensuring reproducible biological results free from technical artifacts.
MDheweiIdentify differential methylation between sample groups from Illumina beta-value matrices.
dailycafiMap metabolites to KEGG, Reactome, and SMPDB pathways with enrichment and topology analysis.
MubasherMohammedCompute epigenetic age from DNA methylation data using PyAging clocks.
Imad-OuteAnalyze DNA, RNA, and protein sequences with alignment and phylogenetic tree construction.
