PanNETsubtypesmRNAVal: Validation of gene expression PanNET subtypes using gene...
In syspremed/PanNETassigner: A cross-species analysis in pancreatic neuroendocrine tumors reveals molecular subtypes with distinctive clinical, metastatic, developmental, and metabolic characteristics.
Description
Usage
Arguments
Details
Value
Author(s)
References
Examples
Description
This function selects PanNETassinger-mRNA signature from the gene expression validation dataset. NMF is employed to indentify PanNET subtypes using this dataset.
Usage
1
PanNETsubtypesmRNAVal(Indata, IndSAMdata)
Arguments
Indata
PanNETsubtypesmRNAVal.Indata is the gene expression validation dataset. Genes are on the rows and the first column contain the gene names.
IndSAMdata
PanNETsubtypesmRNAVal.IndSAMdata contain 221 PanNETassigner-mRNA signature for finding the PanNET subtypes.
Details
The 221 PanNETassigner-mRNA signature in PanNETsubtypesmRNAVal.IndSAMdata is selected from PanNETsubtypesmRNAVal.Indata, gene expression validation dataset, and NMF is used to discover PanNET mRNA expression subtypes in this dataset.
Value
The output of this function include NMF mRNA expression subtypes saved in your working directory under PanNetResults/mRNAVal folder.
Author(s)
Anguraj Sadanandam anguraj.sadanandam@icr.ac.uk
References
Anguraj Sadanandam, et all (2015). A cross-species analysis in pancreatic neuroendocrine tumors reveals molecular subtypes with distinctive clinical, metastatic, developmental, and metabolic characteristics. Cancer Discovery.
Examples
1
2
3
4
5
### Two datasets are required for this function
data(PanNETsubtypesmRNAVal.Indata)
data(PanNETsubtypesmRNAVal.IndSAMdata)
### Run the function
PanNETsubtypesmRNAVal(PanNETsubtypesmRNAVal.Indata,PanNETsubtypesmRNAVal.IndSAMdata)
syspremed/PanNETassigner documentation built on May 31, 2019, 12:48 a.m.
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Description Usage Arguments Details Value Author(s) References Examples
Description
This function selects PanNETassinger-mRNA signature from the gene expression validation dataset. NMF is employed to indentify PanNET subtypes using this dataset.
Usage
1 | PanNETsubtypesmRNAVal(Indata, IndSAMdata)
|
Arguments
Indata |
PanNETsubtypesmRNAVal.Indata is the gene expression validation dataset. Genes are on the rows and the first column contain the gene names. |
IndSAMdata |
PanNETsubtypesmRNAVal.IndSAMdata contain 221 PanNETassigner-mRNA signature for finding the PanNET subtypes. |
Details
The 221 PanNETassigner-mRNA signature in PanNETsubtypesmRNAVal.IndSAMdata is selected from PanNETsubtypesmRNAVal.Indata, gene expression validation dataset, and NMF is used to discover PanNET mRNA expression subtypes in this dataset.
Value
The output of this function include NMF mRNA expression subtypes saved in your working directory under PanNetResults/mRNAVal folder.
Author(s)
Anguraj Sadanandam anguraj.sadanandam@icr.ac.uk
References
Anguraj Sadanandam, et all (2015). A cross-species analysis in pancreatic neuroendocrine tumors reveals molecular subtypes with distinctive clinical, metastatic, developmental, and metabolic characteristics. Cancer Discovery.
Examples
1 2 3 4 5 | ### Two datasets are required for this function
data(PanNETsubtypesmRNAVal.Indata)
data(PanNETsubtypesmRNAVal.IndSAMdata)
### Run the function
PanNETsubtypesmRNAVal(PanNETsubtypesmRNAVal.Indata,PanNETsubtypesmRNAVal.IndSAMdata)
|
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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