run_thunder: THUNDER estimates cell type proportions in bulk Hi-C datasets
In brycerowland/thundeR: thundeR: R-package to run the Two-step Hi-c UNsupervised DEconvolution appRoach
Description
THUNDER estimates cell type proportions in bulk Hi-C datasets
Usage
1
run_thunder(path_to_mixture, n_cell_types, itter = 200, out_init_nmf = NULL)
Arguments
path_to_mixture
String. Path to .tsv file of bulk Hi-C samples.
n_cell_types
Integer. The number of columns in the basis matrix of the deconvolution. Corresponds to the number of cell types in bulk Hi-C mixture.
itter
Integer. Number of itterations for NMF algorithm. Default is 200.
out_init_nmf
String. Default is NULL. If character, then saves the initial NMF fit as a .RDS object to specified file path.
brycerowland/thundeR documentation built on Dec. 14, 2021, 4:59 p.m.
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Description
THUNDER estimates cell type proportions in bulk Hi-C datasets
Usage
1 | run_thunder(path_to_mixture, n_cell_types, itter = 200, out_init_nmf = NULL)
|
Arguments
path_to_mixture |
String. Path to .tsv file of bulk Hi-C samples. |
n_cell_types |
Integer. The number of columns in the basis matrix of the deconvolution. Corresponds to the number of cell types in bulk Hi-C mixture. |
itter |
Integer. Number of itterations for NMF algorithm. Default is 200. |
out_init_nmf |
String. Default is NULL. If character, then saves the initial NMF fit as a .RDS object to specified file path. |
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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