I I have RNA-Seq data for A. thaliana and I would like to perform clustering based on accessions to observe grouping patterns. What steps should I take? Should I consider interactome, transcriptome, etc?
Thank you for replying! I am interested in organizing the accessions based on genetic variety similarity to facilitate the creation of a co-expression network.
Could you please advise if this approach is feasible and, if so, provide guidance on the necessary procedures?
First making sure to assemble (trinity) the data and reduce the homology (cdhit). Predict the homology cluster and coexpression analysis to use the WGCNA algorithms.