Man pages for jingwyang/TreeExp
the R package for analyzing expression evolution based on RNA-seq data
| aee | Ancestral Expression Estimation |
| boot.exphy | Bootstrapping expression phylogeny |
| corrMatInv | Generate an inversed correlation matrix between expression... |
| delta | Estimating delta values from a distance matrix. |
| distances | Internal functions for estimating pair-wise expression... |
| dist.sou_v | Estimate sOU expression distance when expression optima vary... |
| estomega | Estimation of over-dispersion parameter omega |
| estomega.sample | Internal function for omega estimation in bootstrapping |
| estParaGamma | Estimation of parameters of selection strength Gamma... |
| estParaQ | Estimation of parameter Q from expression table |
| estParaWBayesian | Bayesian estimation of expression conservation from previous... |
| estVarCov | Expression variance-covariance matrix |
| example_data | Example of the Input Data Format |
| expdist | Expression distance matrix generated from a 'taxaExp' object |
| exptabTE | Expression level table from a 'taxonExp' class |
| gamma | Estimating gamma from taxaExp objects. |
| map | Map the expression distance onto a given tree topology |
| NJ | Neighbor-joining |
| no0br | No negative or zero branch length |
| Consice display of 'taxaExp' or 'taxonExp' object | |
| RelaRate.test | Relative Rate Test for Gene Expression |
| TEconstruct | Construct a taxaExp object. |
| tetraExp | taxaExp object created from expression data |
| TreeExp | the TreeExp package for phylogenetic analysis of expression... |
| varMatInv | Generate an inversed variance matrix from expression profile... |
