Miscellaneous |
Version lineage of this tool (guids ordered most recent to oldest) |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/2.1.7+galaxy1 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/2.1.7 (this tool) |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/2.1.1 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.3.6 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.3.4 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.3.3.2 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.3.3.1 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.3.3 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.2.3 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.1.0 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.0.4 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.0.3 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.0.1 |
toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.0.0 |
stringtie |
Requirements (dependencies defined in the <requirements> tag set) |
name | version | type |
stringtie | 2.1.7 | package |
samtools | 1.13 | package |
Functional tests |
name | inputs | outputs | required files |
Test-1 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads |
name: value |
stringtie_in1.bam value |
Test-2 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads adv|fraction: 0.17 |
name: value |
stringtie_in1.bam value |
Test-3 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads guide|guide_source|ref_hist: stringtie_in.gtf guide|guide_source|guide_gff_select: history guide|use_guide: yes |
name: value |
stringtie_in1.bam stringtie_in.gtf value |
Test-4 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads guide|guide_source|ref_hist: stringtie_in.gtf guide|guide_source|guide_gff_select: history guide|use_guide: yes adv|fraction: 0.17 |
name: value |
stringtie_in1.bam stringtie_in.gtf value |
Test-5 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads guide|guide_source|ref_hist: stringtie_in.gtf guide|guide_source|guide_gff_select: history guide|special_outputs|special_outputs_select: ballgown guide|coverage_file: True guide|use_guide: yes |
name: value name: value name: value name: value name: value name: value name: value |
stringtie_in1.bam stringtie_in.gtf value |
Test-6 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads guide|guide_source|ref_hist: stringtie_in.gtf guide|guide_source|guide_gff_select: history guide|input_estimation: True guide|special_outputs|clustering: True guide|special_outputs|special_outputs_select: deseq2 guide|coverage_file: True guide|use_guide: yes |
name: value name: value name: value name: value name: value |
stringtie_in1.bam stringtie_in.gtf value |
Test-7 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads guide|guide_source|ref_hist: stringtie_in.gtf guide|guide_source|guide_gff_select: history guide|use_guide: yes adv|abundance_estimation: True adv|fraction: 0.17 |
name: value name: value |
stringtie_in1.bam stringtie_in.gtf value |
Test-8 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads guide|guide_source|ref_hist: stringtie_in.gtf guide|guide_source|guide_gff_select: history guide|use_guide: yes adv|fraction: 0.15 |
name: value |
stringtie_in1.bam stringtie_in.gtf value |
Test-9 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: short_reads guide|guide_source|guide_gff_select: cached guide|use_guide: yes adv|fraction: 0.15 |
name: value |
stringtie_in1.bam value |
Test-10 |
input_options|input_bam: stringtie_in1.bam input_options|input_mode: long_reads guide|guide_source|guide_gff_select: cached guide|use_guide: yes adv|fraction: 0.15 |
name: value |
stringtie_in1.bam value |
Test-11 |
input_options|input_bam: long_reads.bam input_options|error_splice: 30 input_options|input_mode: long_reads guide|guide_source|guide_gff_select: cached guide|use_guide: yes adv|fraction: 0.15 |
name: value |
long_reads.bam value |
Test-12 |
input_options|input_bam_short: short_reads.bam input_options|input_bam_long: long_reads.bam input_options|input_mode: mixed_reads |
name: value |
short_reads.bam long_reads.bam value |