| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.5+galaxy3 |
| toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.5+galaxy2 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.5+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.5+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.4+galaxy2 |
| toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.3.1+galaxy2 |
| toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.3.1+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.3.1+galaxy0 |
| lofreq_call |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| lofreq | 2.1.5 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
reads: lofreq-in1.bam reference_source|ref: pBR322.fa reference_source|ref_selector: history |
name: value |
lofreq-in1.bam pBR322.fa value |
| Test-2 |
reads: lofreq-in1.bam reference_source|ref: pBR322.fa reference_source|ref_selector: history call_control|set_call_options: yes |
name: value |
lofreq-in1.bam pBR322.fa value |
| Test-3 |
reads: lofreq-in1.bam reference_source|ref: pBR322.fa reference_source|ref_selector: history call_control|source_qual|use_src_qual|def_nm_q: 40 call_control|source_qual|use_src_qual|ign_vcf: call-out1.vcf call_control|source_qual|use_src_qual|src_qual: --src-qual call_control|set_call_options: yes |
name: value |
lofreq-in1.bam pBR322.fa call-out1.vcf value |
| Test-4 |
reads: lofreq-in1.bam reference_source|ref: pBR322.fa reference_source|ref_selector: history filter_control|filter_type: set_all_off |
name: value |
lofreq-in1.bam pBR322.fa value |
| Test-5 |
reads: indelqual-out3.bam reference_source|ref: pBR322.fa reference_source|ref_selector: history variant_types: --call-indels --only-indels filter_control|filter_type: set_all_off |
name: value |
indelqual-out3.bam pBR322.fa value |