limma is available as part of Bioconductor, see: https://bioconductor.org/packages/limma. Questions about limma can be sent to the Bioconductor support forum at https://support.bioconductor.org.

This repository is used to host limma documentation. The following vignettes and example analyses using are available:

• limma User's Guide (pdf)
• Datasets used in the limma User's Guide
• limma Reference Manual (pdf)
• RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR
• GSE118337: example analysis with human Agilent microarrays

References

Ritchie ME, Phipson B, Wu D, Hu Y, Law CW, Shi W, Smyth GK (2015). limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Research 43, e47. doi:10.1093/nar/gkv007

Baldoni PL, Chen L, Li M, Chen Y, Smyth GK (2025). Dividing out quantification uncertainty enables assessment of differential transcript usage with limma and edgeR. Nucleic Acids Research 53(22), gkaf1305. doi:10.1093/nar/gkaf1305