| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/varscan_somatic/varscan_somatic/2.4.3.2 |
| toolshed.g2.bx.psu.edu/repos/iuc/varscan_somatic/varscan_somatic/2.4.3.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/varscan_somatic/varscan_somatic/2.4.3.0 |
| varscan_somatic |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| varscan | 2.4.3 | package |
| gawk | 4.2.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
pileup|tumor_pileup: T_Region_Chr1_CDKN2C.pileup.gz normal_purity: 0.6 min_avg_qual: 5 min_coverage_normal: 2 min_freq_for_hom: 0.75 pileup|pileup_select: separated tumor_purity: 0.6 min_coverage_tumor: 2 min_reads2: 1 p_value: 0.99 pileup|normal_pileup: N_Region_Chr1_CDKN2C.pileup.gz min_var_freq: 0.01 min_coverage: 2 |
attributes: name attributes: name |
N_Region_Chr1_CDKN2C.pileup.gz T_Region_Chr1_CDKN2C.pileup.gz name |
| Test-2 |
min_coverage: 2 normal_purity: 0.6 min_reads2: 1 min_avg_qual: 5 min_coverage_normal: 2 min_freq_for_hom: 0.75 pileup|pileup_select: combined min_coverage_tumor: 2 pileup|combined_pileup: NT.pileup.gz p_value: 0.99 min_var_freq: 0.01 tumor_purity: 0.6 |
attributes: name attributes: name |
NT.pileup.gz name |