dataflow/split_h5mu_train_test

Description

Split mudata object into training and testing (and validation) datasets based on observations into separate mudata objects.

Type

python_script

Links

Repository

Contributors

Launch

Run this component

Run the following command to execute this component with Nextflow:

cat > params.yaml <<'EOM'  
modality: [ "rna" ]  
output_train: "$id.$key.output_train.h5mu"  
output_test: "$id.$key.output_test.h5mu"  
output_val: "$id.$key.output_val.h5mu"  
test_size: [ 0.2 ]  
id: "run"  
publish_dir: "output/"  
EOM

nextflow run https://packages.viash-hub.com/vsh/openpipeline.git \  
  -revision 2.0.0 \  
  -main-script target/nextflow/dataflow/split_h5mu_train_test/main.nf \  
  -params-file params.yaml

Inputs

Name	Type & Properties	Description
--input	file required	The input (query) data to be labeled. Should be a .h5mu file.
--modality	string	Which modality to process.

Name

Type & Properties

--input

file

required

--modality

string

Outputs

Name	Type & Properties	Description
--output_train	file required output	The output training data in mudata format.
--output_test	file required output	The output testing data in mudata format.
--output_val	file output	The output validation data in mudata format.
--compression	string

Name

Type & Properties

--output_train

file

required

output

--output_test

file

required

output

--output_val

file

output

--compression

string

Split arguments

Name	Type & Properties	Description
--test_size	double	The proportion of the dataset to include in the test split.
--val_size	double	The proportion of the dataset to include in the validation split.
--shuffle	boolean_true	Whether or not to shuffle the data before splitting.
--random_state	integer	The seed used by the random number generator.

Name

Type & Properties

--test_size

double

--val_size

double

--shuffle

boolean_true

--random_state

integer