| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity/align_and_estimate_abundance/2.1.1.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity/align_and_estimate_abundance/2.1.1 |
| align_and_estimate_abundance |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| trinity | 2.1.1 | package |
| bowtie | 1.1.2 | package |
| bowtie2 | 2.2.6 | package |
| samtools | 1.2 | package |
| rsem | 1.2.28 | package |
| express | 1.5.1 | 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 |