TenXSubset-class: Class used to represent the grouped TenXData. The object...
In yavorska/TenXAnalysisPackage: Analysis of the 10x Genomics 1.3 Million Cells Data
Description
Class used to represent the grouped TenXData. The object provides summarised
information about the chosen subset of cells which can then be analysed using
a variety of plotting functions.
Slots
geneCountsA data.frame with genes as rows and sample groups as
columns. Each element represents the total number of transcripts associated
with the gene in the chosen cell group.
geneExpressedSimilar to geneCounts, here we determine the number of cells
in which this particular gene is expressed (out of the total number in the
group).
geneNamesThe names of the genes associated with each row.
geneENSEMBLThe ENSEMBL id associated with each row.
cellCountsA data.frame which documents the number of transcripts per
cell and number of unexpressed genes per cell. These can be accessed through
"cellTranscripts" and "cellExpressed"
cellMouseA vector giving the mouse associated with each cell.
cellLibThe library associated with each cell in the data.
cellGroupThe group associated with each cell in the data,
characterised by groupSize.
cellNThe number of cells included in this data set.
groupNThe number of distinct groups of those samples.
libNThe number of distinct libraries to which the cells belong.
geneNThe number of genes for which we have associated counts.
cellIndexThe cells used in this subset relative to the original
1.3 million cell data.
geneIndexThe genes included in this subset.
groupSizeThe size of the bins used to summarise the data.
yavorska/TenXAnalysisPackage documentation built on May 29, 2019, 12:42 p.m.
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Description
Class used to represent the grouped TenXData. The object provides summarised information about the chosen subset of cells which can then be analysed using a variety of plotting functions.
Slots
geneCountsA data.frame with genes as rows and sample groups as columns. Each element represents the total number of transcripts associated with the gene in the chosen cell group.
geneExpressedSimilar to geneCounts, here we determine the number of cells in which this particular gene is expressed (out of the total number in the group).
geneNamesThe names of the genes associated with each row.
geneENSEMBLThe ENSEMBL id associated with each row.
cellCountsA data.frame which documents the number of transcripts per cell and number of unexpressed genes per cell. These can be accessed through "cellTranscripts" and "cellExpressed"
cellMouseA vector giving the mouse associated with each cell.
cellLibThe library associated with each cell in the data.
cellGroupThe group associated with each cell in the data, characterised by
groupSize.cellNThe number of cells included in this data set.
groupNThe number of distinct groups of those samples.
libNThe number of distinct libraries to which the cells belong.
geneNThe number of genes for which we have associated counts.
cellIndexThe cells used in this subset relative to the original 1.3 million cell data.
geneIndexThe genes included in this subset.
groupSizeThe size of the bins used to summarise the data.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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