Hello,
I have a RNA-seq count Data, with several conditions. and I'd like to do to a polytomous analysis to find the different clusters and their respective gene signatures.
I find le package in R but I wante an example script how to do it.
Thank you
I haven't heard of that packages....Are you hoping to find gene set clusters with relevant functions based on their expression levels across your conditions? If so, TopHat+cufflinks pipeline is a good reference.
Thank you for your answers,
in fact I find this article where they use this method : polytoumos analysis to define cluster with severel group without priori information.
Saeed et al. Science 2014
"Epigenetic programming of monocyteto-macrophage differentiation and trained innate immunity."
""""""
polytomous model selection approach that allows for classifying genes according to
their expression pattern by considering multiple conditions simultaneously instead of generating multiple pairwise comparisons.
""""""
I read the sentences you emphasized in the paper. According to its quoted reference “Flexible analysis of RNA-seq data using mixed effects models”, I think the author might carry out his clustering with mmseq (https://github.com/eturro/mmseq). Perhaps that's what you want.
- Badges
- Science topic
- Similar topics
- Computer Science and Engineering
- Bioinformatics
- Bioinformatic Tools