| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/2.2.1.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/2.2.1.0 (this tool) |
| gffread |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| cufflinks | 2.2.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input: Homo_sapiens.GRCh37_19.71.gtf gffs|gff_fmt: gff |
output_gff: Homo_sapiens.GRCh37_19.71.gff3 |
Homo_sapiens.GRCh37_19.71.gtf Homo_sapiens.GRCh37_19.71.gff3 |
| Test-2 |
input: Homo_sapiens.GRCh37_19.71.gtf filtering: --no-pseudo gffs|gff_fmt: gtf |
output_gtf: None |
Homo_sapiens.GRCh37_19.71.gtf |
| Test-3 |
input: Homo_sapiens.GRCh37_19.71.gtf region|range: 19:496500..504965 region|region_filter: filter gffs|gff_fmt: gtf |
output_gtf: None |
Homo_sapiens.GRCh37_19.71.gtf |
| Test-4 |
input: Homo_sapiens.GRCh37_19.71.gtf region|discard_partial: True region|range: 19:496500..504965 region|region_filter: filter gffs|gff_fmt: gtf |
output_gtf: None |
Homo_sapiens.GRCh37_19.71.gtf |
| Test-5 |
input: Homo_sapiens.GRCh37_19.71.gtf filtering: -C region|region_filter: filter region|range: 19:496500..504965 gffs|gff_fmt: gtf |
output_gtf: None |
Homo_sapiens.GRCh37_19.71.gtf |
| Test-6 |
region|range: 19:496500..504965 reference_genome|fa_outputs: ['-w exons.fa', '-x cds.fa', '-y pep.fa'] region|region_filter: filter reference_genome|source: history input: Homo_sapiens.GRCh37_19.71.gtf gffs|gff_fmt: gtf reference_genome|genome_fasta: Homo_sapiens.GRCh37.71.dna.chromosome.19.fa |
output_gtf: None output_exons: None output_cds: None output_pep: None |
Homo_sapiens.GRCh37_19.71.gtf Homo_sapiens.GRCh37.71.dna.chromosome.19.fa |