| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/galaxyp/msi_classification/mass_spectrometry_imaging_classification/1.10.0.0 (this tool) |
| mass_spectrometry_imaging_classification |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bioconductor-cardinal | 1.10.0 | package |
| r-gridextra | 2.2.1 | package |
| r-lattice | 0.20-35 | package |
| r-ggplot2 | 2.2.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
type_cond|method_cond|class_method: PLS type_cond|type_method: training type_cond|method_cond|analysis_cond|fold_cond|fold_column: 1 type_cond|y_cond|y_column: 2 type_cond|y_cond|y_data: pixel_annotation_file1.tabular type_cond|method_cond|analysis_cond|PLS_method: cvapply type_cond|method_cond|analysis_cond|plscv_comp: 2:4 type_cond|y_cond|y_vector: y_external type_cond|method_cond|analysis_cond|fold_cond|fold_vector: fold_external type_cond|method_cond|analysis_cond|fold_cond|fold_data: pixel_annotation_file1.tabular infile: testfile_squares.rdata |
attributes: name attributes: name attributes: name |
testfile_squares.rdata pixel_annotation_file1.tabular name |
| Test-2 |
output_rdata: True type_cond|method_cond|class_method: PLS type_cond|type_method: training type_cond|y_cond|y_column: 2 type_cond|method_cond|analysis_cond|PLS_method: PLS_analysis type_cond|method_cond|analysis_cond|pls_toplabels: 100 type_cond|y_cond|y_vector: y_external type_cond|y_cond|y_data: pixel_annotation_file1.tabular type_cond|method_cond|analysis_cond|pls_scale: True type_cond|method_cond|analysis_cond|pls_comp: 2 infile: testfile_squares.rdata |
attributes: name attributes: name attributes: name attributes: name |
testfile_squares.rdata pixel_annotation_file1.tabular name |
| Test-3 |
type_cond|method_cond|class_method: OPLS type_cond|type_method: training type_cond|y_cond|y_column: 2 type_cond|y_cond|y_vector: y_external type_cond|y_cond|y_data: random_factors.tabular infile: testfile_squares.rdata type_cond|method_cond|opls_analysis_cond|opls_method: opls_analysis |
attributes: name attributes: name attributes: name |
testfile_squares.rdata random_factors.tabular name |
| Test-4 |
output_rdata: True type_cond|method_cond|class_method: OPLS type_cond|type_method: training type_cond|y_cond|y_column: 2 type_cond|method_cond|opls_analysis_cond|opls_scale: FALSE type_cond|method_cond|opls_analysis_cond|opls_comp: 3 type_cond|y_cond|y_data: random_factors.tabular type_cond|method_cond|opls_analysis_cond|xnew: False type_cond|method_cond|opls_analysis_cond|opls_toplabels: 100 type_cond|y_cond|y_vector: y_external infile: testfile_squares.rdata type_cond|method_cond|opls_analysis_cond|opls_method: opls_analysis |
attributes: name attributes: name attributes: name attributes: name |
testfile_squares.rdata random_factors.tabular name |
| Test-5 |
type_cond|method_cond|ssc_analysis_cond|ssc_method: ssc_cvapply type_cond|type_method: training type_cond|y_cond|y_column: 2 type_cond|method_cond|class_method: spatialShrunkenCentroids type_cond|y_cond|y_vector: y_external type_cond|y_cond|y_data: pixel_annotation_file1.tabular type_cond|method_cond|ssc_analysis_cond|ssc_fold_cond|ssc_fold_column: 1 type_cond|method_cond|ssc_analysis_cond|ssc_fold_cond|ssc_fold_vector: ssc_fold_external infile: testfile_squares.rdata type_cond|method_cond|ssc_analysis_cond|ssc_fold_cond|ssc_fold_data: pixel_annotation_file1.tabular |
attributes: name attributes: name attributes: name |
testfile_squares.rdata pixel_annotation_file1.tabular name |
| Test-6 |
output_rdata: True type_cond|method_cond|ssc_analysis_cond|ssc_method: ssc_analysis type_cond|type_method: training type_cond|y_cond|y_column: 2 type_cond|method_cond|class_method: spatialShrunkenCentroids type_cond|method_cond|ssc_kernel_method: adaptive type_cond|method_cond|ssc_r: 2 type_cond|method_cond|ssc_analysis_cond|ssc_toplabels: 100 type_cond|method_cond|ssc_s: 2 type_cond|y_cond|y_data: random_factors.tabular type_cond|y_cond|y_vector: y_external infile: testfile_squares.rdata |
attributes: name attributes: name attributes: name attributes: name |
testfile_squares.rdata random_factors.tabular name |
| Test-7 |
output_rdata: True type_cond|type_method: prediction type_cond|training_result: test2.rdata type_cond|new_y|new_y_column: 2 type_cond|new_y|new_y_values: new_y_external type_cond|new_y|new_y_data: pixel_annotation_file1.tabular infile: testfile_squares.rdata |
attributes: name attributes: name attributes: name attributes: name |
testfile_squares.rdata test2.rdata pixel_annotation_file1.tabular name |