| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_abundance_estimates_to_matrix/trinity_abundance_estimates_to_matrix/2.4.0.0 |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_abundance_estimates_to_matrix/trinity_abundance_estimates_to_matrix/2.2.0.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/trinity_abundance_estimates_to_matrix/trinity_abundance_estimates_to_matrix/2.2.0.0 |
| trinity_abundance_estimates_to_matrix |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| trinity | 2.2.0 | package |
| bioconductor-edger | 3.14.0 | package |
| salmon | 0.7.2 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
additional_params|cross_sample_norm: TMM est_method: RSEM samples: ['count/rsem_bowtie/sample_A', 'count/rsem_bowtie/sample_B'] |
trans_counts: None TPM_no_norm: None norm: None |
count/rsem_bowtie/sample_A count/rsem_bowtie/sample_B |
| Test-2 |
additional_params|cross_sample_norm: TMM est_method: RSEM samples: ['count/rsem_bowtie2/sample_A', 'count/rsem_bowtie2/sample_B'] |
trans_counts: None TPM_no_norm: None norm: None |
count/rsem_bowtie2/sample_A count/rsem_bowtie2/sample_B |
| Test-3 |
additional_params|cross_sample_norm: TMM est_method: eXpress samples: ['count/express_bowtie/sample_A', 'count/express_bowtie/sample_B'] |
trans_counts: None TPM_no_norm: None norm: None |
count/express_bowtie/sample_A count/express_bowtie/sample_B |
| Test-4 |
additional_params|cross_sample_norm: UpperQuartile est_method: RSEM samples: ['count/rsem_bowtie/sample_A', 'count/rsem_bowtie/sample_B'] |
trans_counts: None TPM_no_norm: None norm: None |
count/rsem_bowtie/sample_A count/rsem_bowtie/sample_B |
| Test-5 |
additional_params|cross_sample_norm: none est_method: RSEM samples: ['count/rsem_bowtie/sample_A', 'count/rsem_bowtie/sample_B'] |
trans_counts: None TPM_no_norm: None |
count/rsem_bowtie/sample_A count/rsem_bowtie/sample_B |
| Test-6 |
additional_params|cross_sample_norm: none est_method: salmon samples: ['count/salmon/sample_A', 'count/salmon/sample_B'] |
trans_counts: None TPM_no_norm: None |
count/salmon/sample_A count/salmon/sample_B |