SmallSeqFlow: A streamlined, notebook-based bulk RNA-seq analysis pipeline optimized for small-sample studies with modular extensions.

Published in GigaScience. Web app for post-GWAS/QTL analysis that performs a slew of novel bioinformatics analyses to cross-reference GWAS/QTL mapping results with a host of publicly available rice databases

A step-by-step tutorial for Weighted correlation network analysis (WGCNA) applied to see differential disease severity immune response in Dengue infected large indian cohort.

GSEA and the coexpression network approach identify novel pathway connections of molecular processes affected in Porto-sinusoidal vascular disease

The TRN inference and regulon enrichment analysis was done with RTN v. 2.10.1 (Fletcher, Castro et al. 2013) and topGO v. 2.38.1 (Alexa and Rahnenfuhrer 2010). The code is fully available as a R notebook.