| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.3.3 |
| toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.2.3 (this tool) |
| 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 | 1.2.3 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input_bam: stringtie_in1.bam option_set|options: default guide|use_guide: no |
output_gtf: stringtie_out1.gtf |
stringtie_in1.bam stringtie_out1.gtf |
| Test-2 |
option_set|fraction: 0.17 input_bam: stringtie_in1.bam option_set|options: advanced guide|use_guide: no |
output_gtf: stringtie_out2.gtf |
stringtie_in1.bam stringtie_out2.gtf |
| Test-3 |
input_bam: stringtie_in1.bam guide|guide_gff: stringtie_in.gtf option_set|options: default guide|use_guide: yes |
output_gtf: stringtie_out3.gtf |
stringtie_in1.bam stringtie_in.gtf stringtie_out3.gtf |
| Test-4 |
option_set|fraction: 0.17 input_bam: stringtie_in1.bam guide|guide_gff: stringtie_in.gtf option_set|options: advanced guide|use_guide: yes |
output_gtf: stringtie_out4.gtf |
stringtie_in1.bam stringtie_in.gtf stringtie_out4.gtf |
| Test-5 |
guide|output_ballgown: True input_bam: stringtie_in1.bam guide|guide_gff: stringtie_in.gtf option_set|options: default guide|use_guide: yes |
exon_expression: e_data.ctab intron_expression: i_data.ctab transcript_expression: t_data.ctab exon_transcript_mapping: e2t.ctab intron_transcript_mapping: i2t.ctab output_gtf: stringtie_out5.gtf coverage: stringtie_out_coverage.gtf |
stringtie_in1.bam stringtie_in.gtf ballgown/e_data.ctab ballgown/i_data.ctab ballgown/t_data.ctab ballgown/e2t.ctab ballgown/i2t.ctab stringtie_out5.gtf stringtie_out_coverage.gtf |
| Test-6 |
option_set|abundance_estimation: True guide|use_guide: yes option_set|fraction: 0.17 input_bam: stringtie_in1.bam guide|guide_gff: stringtie_in.gtf option_set|options: advanced |
output_gtf: stringtie_out4.gtf gene_abundance_estimation: stringtie_out6.gtf |
stringtie_in1.bam stringtie_in.gtf stringtie_out4.gtf stringtie_out6.gtf |
| Test-7 |
option_set|fraction: 0.15 input_bam: stringtie_in1.bam guide|guide_gff: stringtie_in.gtf option_set|options: advanced guide|use_guide: yes |
output_gtf: stringtie_out7.gtf |
stringtie_in1.bam stringtie_in.gtf stringtie_out7.gtf |