Man pages for HangRuan1912/phyExp
the R package for analyzing expression evolution based on RNA-seq data
| aee | Generate an inversed variance matrix from expression profile... |
| 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... |
| 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 |
| expdist | Expression distance matrix generated from a taxaExp class |
| exptabTE | Expression level table from a taxaExp class |
| gamma | Estimating gamma from taxaExp objects. |
| genefilters | Filters for subsetting orthologous genes |
| map | Map the expression distance onto a given tree topology |
| nj | Neighbor-joining |
| no0br | No zero branch length |
| primatexp | taxaExp object created from expression data of primate... |
| print.taxaExp | Consice display of a taxaExp object |
| print.taxonExp | Concise display of a taxonExp object |
| TEconstruct | Construct a taxaExp object. |
| tetraexp | taxaExp object created from expression data |
| TreeExp-package | the TreeExp package for phylogenetic analysis of expression... |
| trees | species trees and ultrametric time trees |
