liver_kidney: data objects for liver and kidney mixing samples

In DeconRNASeq: Deconvolution of Heterogeneous Tissue Samples for mRNA-Seq data

Description

a list containing:

1) datasets:a data drame providing the RPKM of seven mixing samples.

2) proportions: a data frame providing the fractions for liver and kidney in the mixing samples

3) signatures: a data frame providing the expression values from pure liver and kidney samples

Usage

liver_kidney

Format

A list 1) a data frame with 31979 genes' expression on the 7 mixing samples: reads.1, reads.2, reads.3, reads.4, reads.5, reads.6, reads.7

2) a martix whose rows are mixing samples' name and columns are fractions from pure live and kidney tissues

3) a data matrix with 630 expressions from pure liver and kidney tissues

Author(s)

Ting Gong [e-mail] Joseph D. Szustakowski [e-mail]

Examples

data(liver_kidney)

Example output

Loading required package: limSolve
Loading required package: pcaMethods
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colMeans, colSums, colnames, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
    pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
    setdiff, sort, table, tapply, union, unique, unsplit, which,
    which.max, which.min

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.


Attaching package: 'pcaMethods'

The following object is masked from 'package:stats':

    loadings

Loading required package: ggplot2

Attaching package: 'ggplot2'

The following object is masked from 'package:limSolve':

    resolution

Loading required package: grid

DeconRNASeq documentation built on Nov. 8, 2020, 7:51 p.m.