| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.7 |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.6 (this tool) |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.5 |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.4 |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.3 |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.0 |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/0.0.7 |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/0.0.6 |
| cuffdiff |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| cufflinks | 2.2.1 | package |
| bioconductor-cummerbund | 2.16.0 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
gtf_input: cuffdiff_in1.gtf omit_tabular_output: True generate_sqlite: True in_type|conditions_0|name: q1 in_type|conditions_0|samples: cuffdiff_in1.sam in_type|conditions_1|name: q2 in_type|conditions_1|samples: cuffdiff_in2.sam in_type|set_in_type: BAM fdr: 0.05 min_alignment_count: 0 multiread_correct: False bias_correction|do_bias_correction: No additional|sAdditional: No |
name: value |
cuffdiff_in1.gtf cuffdiff_in1.sam cuffdiff_in2.sam value |
| Test-2 |
gtf_input: cuffdiff_in1.gtf omit_tabular_output: True generate_sqlite: True in_type|conditions: list collection in_type|set_in_type: CONDITION_LIST fdr: 0.05 min_alignment_count: 0 multiread_correct: False bias_correction|do_bias_correction: No additional|sAdditional: No |
name: value |
cuffdiff_in1.gtf cuffdiff_in1.sam cuffdiff_in2.sam value |
| Test-3 |
gtf_input: cuffdiff_in1.gtf omit_tabular_output: False in_type|conditions_0|name: q1 in_type|conditions_0|samples: cuffdiff_in1.sam in_type|conditions_1|name: q2 in_type|conditions_1|samples: cuffdiff_in2.sam in_type|set_in_type: BAM fdr: 0.05 min_alignment_count: 0 multiread_correct: False bias_correction|do_bias_correction: No additional|sAdditional: No |
name: value name: value name: value name: value name: value name: value name: value name: value name: value name: value name: value |
cuffdiff_in1.gtf cuffdiff_in1.sam cuffdiff_in2.sam value |