| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_preprocessing/cardinal_preprocessing/1.12.1.3 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_preprocessing/cardinal_preprocessing/1.12.1.2 (this tool) |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_preprocessing/cardinal_preprocessing/1.12.1.1 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_preprocessing/cardinal_preprocessing/1.12.1.0 |
| cardinal_preprocessing |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bioconductor-cardinal | 1.12.1 | package |
| r-base | 3.5.1 | package |
| r-gridextra | 2.3 | package |
| r-ggplot2 | 3.0 | package |
| r-lattice | 0.20_35 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
methods_1|methods_conditional|methods_for_smoothing|sd_gaussian: 4 methods_1|methods_conditional|preprocessing_method: Smoothing methods_5|methods_conditional|transf_conditional|trans_type: sqrt methods_3|methods_conditional|preprocessing_method: Peak_alignment methods_2|methods_conditional|window_picking: 3 methods_2|methods_conditional|methods_for_picking|picking_method: adaptive methods_3|methods_conditional|methods_for_alignment|alignment_method: diff methods_4|methods_conditional|frequ_filtering: 2 infile: methods_2|methods_conditional|blocks_picking: 3 methods_2|methods_conditional|preprocessing_method: Peak_picking methods_2|methods_conditional|SNR_picking_method: 3 methods_1|methods_conditional|methods_for_smoothing|smoothing_method: gaussian methods_4|methods_conditional|preprocessing_method: Peak_filtering methods_0|methods_conditional|preprocessing_method: Normalization imzml_output: imzml_format methods_1|methods_conditional|window_smoothing: 9 methods_5|methods_conditional|preprocessing_method: Transformation |
attributes: name attributes: name |
name |
| Test-2 |
methods_1|methods_conditional|preprocessing_method: Peak_alignment methods_0|methods_conditional|window_picking: 5 methods_0|methods_conditional|SNR_picking_method: 2 methods_0|methods_conditional|blocks_picking: 3 imzml_output: imzml_format methods_0|methods_conditional|methods_for_picking|picking_method: adaptive methods_1|methods_conditional|methods_for_alignment|alignment_method: DP methods_0|methods_conditional|preprocessing_method: Peak_picking infile: 3_files_combined.RData |
attributes: name attributes: name |
3_files_combined.RData name |
| Test-3 |
methods_1|methods_conditional|preprocessing_method: Peak_picking infile: methods_2|methods_conditional|preprocessing_method: Peak_alignment methods_1|methods_conditional|blocks_picking: 100 methods_1|methods_conditional|SNR_picking_method: 3 methods_2|methods_conditional|methods_for_alignment|alignment_method: diff methods_1|methods_conditional|window_picking: 5 methods_0|methods_conditional|preprocessing_method: Normalization imzml_output: imzml_format |
attributes: name attributes: name |
name |
| Test-4 |
methods_1|methods_conditional|preprocessing_method: Data_reduction methods_0|methods_conditional|preprocessing_method: Normalization infile: imzml_output: imzml_format |
attributes: name attributes: name |
name |
| Test-5 |
methods_0|methods_conditional|preprocessing_method: Data_reduction imzml_output: rdata_format methods_0|methods_conditional|methods_for_reduction|reduction_method: resample infile: |
attributes: name attributes: name |
name |