Open antonkulaga opened 5 years ago
hi @antonkulaga , AnceTran was developed only for the method of ancestral inference based on either RNA-seq or ChIP-seq data. And TreeExp is for expression data only and has integrated the methods including
pairwise expression distance estimation
relative rate test for transcriptome evolution
the strength of expression conservation estimation
ancestral transcriptome inference
So I recommend TreeExp for your analysis, and your can read the [Tutorial] (https://jingwyang.github.io/TreeExp-Tutorial/) for reference.
Not clear from the README what is the core difference from TreeExp, support of Chip-Seq data? I am currently doing multi-species comparisons of gene expressions and I want to understand what are the optimal packages