PanNETsubtypesmicRNA: PanNET subtyping based on core clinical miR expression data.
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 microRNAs with standard deviation greater than 0.5, employs NMF to discover subtypes and SAM
to identify microRNAs associated with the subtypes.
Usage
1
PanNETsubtypesmicRNA(Indata)
Arguments
Indata
is the PanNETsubtypesmicRNA.Indata dataset which is micRNA expression data of tumors. micRNAs are on the rows and the first column contain the micRNA names.
Details
The dataset used here, PanNETsubtypesmicRNA.Indata, is microRNA expression data of tumors. micRNAs with standard deviation greater than 0.5 are selected, NMF is employed to discover subtypes and SAM to identify microRNAs associated with the subtypes.
Value
The output of this function include NMF subtypes and associated SAM microRNAs saved in your working directory under PanNetResults/micRNA 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
## Only one dataset required for this function
data(PanNETsubtypesmicRNA.Indata)
## Run the function
PanNETsubtypesmicRNA(PanNETsubtypesmicRNA.Indata)
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 microRNAs with standard deviation greater than 0.5, employs NMF to discover subtypes and SAM to identify microRNAs associated with the subtypes.
Usage
1 | PanNETsubtypesmicRNA(Indata)
|
Arguments
Indata |
is the PanNETsubtypesmicRNA.Indata dataset which is micRNA expression data of tumors. micRNAs are on the rows and the first column contain the micRNA names. |
Details
The dataset used here, PanNETsubtypesmicRNA.Indata, is microRNA expression data of tumors. micRNAs with standard deviation greater than 0.5 are selected, NMF is employed to discover subtypes and SAM to identify microRNAs associated with the subtypes.
Value
The output of this function include NMF subtypes and associated SAM microRNAs saved in your working directory under PanNetResults/micRNA 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 | ## Only one dataset required for this function
data(PanNETsubtypesmicRNA.Indata)
## Run the function
PanNETsubtypesmicRNA(PanNETsubtypesmicRNA.Indata)
|
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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