| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_align_and_estimate_abundance/trinity_align_and_estimate_abundance/2.4.0.3 |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_align_and_estimate_abundance/trinity_align_and_estimate_abundance/2.4.0.2 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_align_and_estimate_abundance/trinity_align_and_estimate_abundance/2.4.0.0 |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_align_and_estimate_abundance/trinity_align_and_estimate_abundance/2.2.0.2 |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_align_and_estimate_abundance/trinity_align_and_estimate_abundance/2.2.0.1 |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_align_and_estimate_abundance/trinity_align_and_estimate_abundance/2.2.0.0 |
| trinity_align_and_estimate_abundance |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| trinity | 2.4.0 | package |
| rsem | 1.3.0 | package |
| express | 1.5.1 | package |
| salmon | 0.8.1 | package |
| kallisto | 0.43.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
additional_params|gene_map|has_gene_map: yes inputs|left_input: reads.left.fq inputs|paired_or_single: paired method|est_method: RSEM method|aln_method: bowtie transcripts: raw/Trinity.fasta inputs|right_input: reads.right.fq |
isoforms_counts_rsem: None genes_counts_rsem: None |
raw/Trinity.fasta reads.left.fq reads.right.fq |
| Test-2 |
additional_params|gene_map|has_gene_map: yes inputs|left_input: reads.left.fq inputs|paired_or_single: paired method|est_method: RSEM method|aln_method: bowtie2 transcripts: raw/Trinity.fasta inputs|right_input: reads.right.fq |
isoforms_counts_rsem: None genes_counts_rsem: None |
raw/Trinity.fasta reads.left.fq reads.right.fq |
| Test-3 |
additional_params|gene_map|has_gene_map: yes inputs|left_input: reads.left.fq inputs|paired_or_single: paired method|est_method: eXpress method|aln_method: bowtie transcripts: raw/Trinity.fasta inputs|right_input: reads.right.fq |
isoforms_counts_express: None genes_counts_express: None |
raw/Trinity.fasta reads.left.fq reads.right.fq |
| Test-4 |
additional_params|gene_map|has_gene_map: yes inputs|left_input: reads.left.fq inputs|paired_or_single: paired transcripts: raw/Trinity.fasta method|est_method: salmon inputs|right_input: reads.right.fq |
isoforms_counts_salmon: None genes_counts_salmon: None |
raw/Trinity.fasta reads.left.fq reads.right.fq |
| Test-5 |
additional_params|gene_map|has_gene_map: yes inputs|left_input: reads.left.fq inputs|paired_or_single: paired transcripts: raw/Trinity.fasta method|est_method: kallisto inputs|right_input: reads.right.fq |
isoforms_counts_kallisto: None genes_counts_kallisto: None |
raw/Trinity.fasta reads.left.fq reads.right.fq |