summarizedexperiment

Brings SummarizedExperiment to the tidyverse

Container class for genomic experiments

Python port of the SummarizedExperiment container

Introductory RNA-seq course for LCG-UNAM Feb 2024 (in Spanish)

Jamses: Jam SummarizedExperiment Stats. Create heatmaps, SEDesign (design and contrasts), SEStats (stats results). Integrate heatmap with stat hits. Plot the design and contrasts.

Reproducible R workflow that generates bulk RNA-seq from single-cell references, injects batch/biology effects, and compares correction methods (ComBat, limma, RUV, fastMNN, SVA) using quantitative metrics and plots. Outputs are bulk-level assays (bulk_counts).

About Introductory RNA-seq course for LCG-UNAM Feb 2026 (in Spanish)

Introductory RNA-seq course for LCG-UNAM Jan 2025 (in Spanish)

Introductory RNA-seq course for LCG-UNAM Feb 2021 (in Spanish)

Bayesian region-specific DNA methylation inference (R package)

GSE280465 EPICv2 DNA methylation resource for Bioconductor ExperimentHub. DOI: 10.5281/zenodo.21200585

Introductory RNA-seq course for LCG-UNAM Feb 2022 (in Spanish)

Introductory RNA-seq course for LCG-UNAM Feb 2023 (in Spanish)

GSE142512 450K and EPIC DNA methylation resources for Bioconductor ExperimentHub. DOI: 10.5281/zenodo.21198533

R-based metabolomics analysis of zebrafish liver responses to long-term BPF exposure, including statistical, multivariate and clustering analyses.

Beginner-friendly LEfSe/lefser pipeline for microbiome differential abundance analysis. Automatically formats input tables, builds a SummarizedExperiment, runs lefser, and generates publication-ready plots with a single command.

Orchestrating Blood Radiation Transcriptomic Data