| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/drosofff/lumpy/lumpy/0.3.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/drosofff/lumpy/lumpy/0.3.0 |
| toolshed.g2.bx.psu.edu/repos/drosofff/lumpy/lumpy/0.2.1 |
| toolshed.g2.bx.psu.edu/repos/drosofff/lumpy/lumpy/0.2 |
| toolshed.g2.bx.psu.edu/repos/drosofff/lumpy/lumpy/0.1 |
| lumpy |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| lumpy-sv | 0.2.12 | package |
| samtools | 1.3.1 | package |
| numpy | 1.11.2=py27_0 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
seq_method|additional_params|tt: 0 analysis_type|analysis_type_list: one_sample seq_method|additional_params|back_distance: 10 seq_method|additional_params|min_mapping_threshold: 20 seq_method|additional_params|mw: 4 analysis_type|input_file: sr.input.bam seq_method|additional_params|weight: 1 seq_method|seq_method_list: single-read |
vcf_call: output.vcf |
sr.input.bam output.vcf |
| Test-2 |
seq_method|additional_params|weight: 1 seq_method|additional_params|evidence: True seq_method|additional_params|back_distance: 10 seq_method|additional_params|mw: 4 seq_method|additional_params|tt: 0 analysis_type|analysis_type_list: one_sample seq_method|additional_params|min_mapping_threshold: 20 analysis_type|input_file: sr.input.bam seq_method|additional_params|probability_curve: True seq_method|seq_method_list: single-read |
vcf_call: output_extended.vcf |
sr.input.bam output_extended.vcf |
| Test-3 |
seq_method|additional_params|weight: 1 seq_method|additional_params|back_distance: 10 seq_method|additional_params|min_mapping_threshold: 20 seq_method|additional_params|tt: 0 analysis_type|analysis_type_list: two_sample seq_method|additional_params|mw: 4 analysis_type|input_file: sr.input.bam analysis_type|input_fileB: sr.input.bam seq_method|seq_method_list: single-read |
vcf_call: output_two.vcf |
sr.input.bam output_two.vcf |