Python limma Examples

Programming Language: Python

Namespace/Package Name: rpy2.robjects.r

Method/Function: limma

Examples at hotexamples.com: 2

Python limma - 2 examples found. These are the top rated real world Python examples of rpy2.robjects.r.limma extracted from open source projects. You can rate examples to help us improve the quality of examples.

Example #1

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File: signature.py Project: bluejek128/lungcancer

def limma(dataset, group_A, group_B):

	# Get design
	processed_data = make_design_matrix(dataset['rawdata'], group_A, group_B)

	# Add
	return pandas2ri.ri2py(r.limma(pandas2ri.py2ri(processed_data['expression']), pandas2ri.py2ri(processed_data['design']))).sort_values('logFC', ascending=False).set_index('gene_symbol')

Example #2

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File: signature.py Project: shadow3g/biojupies-plugins

def limma(dataset, group_A, group_B, data='subset', sort_by='t', filter_genes=True):

	# Get design
	processed_data = make_design_matrix(dataset['rawdata'].copy(), group_A, group_B, data)

	# Add
	return pandas2ri.ri2py(r.limma(pandas2ri.py2ri(processed_data['expression']), pandas2ri.py2ri(processed_data['design']), filter_genes)).sort_values(sort_by, ascending=False).set_index('gene_symbol')