Datasets: Data-sets

In seriph78/COTAN: COexpression Tables ANalysis

Data-sets

Description

Simple data-sets included in the package

Usage

data(raw.dataset)

data(ERCCraw)

data(test.dataset)

data(test.dataset.clusters1)

data(test.dataset.clusters2)

data(vignette.split.clusters)

data(vignette.merge.clusters)

data(vignette.merge2.clusters)

Format

raw.dataset is a data frame with 2000 genes and 815 cells

ERCCRaw is a data.frame

test.dataset is a data.frame with 600 genes and 1200 cells

test.dataset.clusters1 is a ⁠character array⁠

test.dataset.clusters2 is a ⁠character array⁠

vignette.split.clusters is a factor

vignette.merge.clusters is a factor

vignette.merge2.clusters is a factor

Details

raw.dataset is a sub-sample of a real scRNA-seq data-set

ERCCRaw dataset

test.dataset is an artificial data set obtained by sampling target negative binomial distributions on a set of 600 genes on 2 two cells clusters of 600 cells each. Each clusters has its own set of parameters for the distributions even, but a fraction of the genes has the same expression in both clusters.

test.dataset.clusters1 is the clusterization obtained running cellsUniformClustering() on the test.dataset

test.dataset.clusters2 is the clusterization obtained running mergeUniformCellsClusters() on the test.dataset using the previous clusterization

vignette.split.clusters is the clusterization obtained running cellsUniformClustering() on the vignette dataset (mouse cortex E17.5, GEO: GSM2861514)

vignette.merge.clusters is the clusterization obtained running mergeUniformCellsClusters() on the vignette dataset (mouse cortex E17.5, GEO: GSM2861514) using the previous clusterization

vignette.merge2.clusters is the clusterization obtained re-running mergeUniformCellsClusters() on the vignette dataset (mouse cortex E17.5, GEO: GSM2861514) using the vignette.split.clusters clusterization, but with a sequence of progressively relaxed checks

Source

GEO GSM2861514

ERCC

seriph78/COTAN documentation built on Dec. 10, 2024, 3:30 a.m.