| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/kallisto_quant/kallisto_quant/0.43.1.3 |
| toolshed.g2.bx.psu.edu/repos/iuc/kallisto_quant/kallisto_quant/0.43.1.2 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/kallisto_quant/kallisto_quant/0.43.1.1 |
| toolshed.g2.bx.psu.edu/repos/iuc/kallisto_quant/kallisto_quant/0.43.1.0 |
| kallisto_quant |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| kallisto | 0.43.1 | package |
| samtools | 1.5 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
single_paired|collection|reverse: mm10_chrM-1.r.fq reference_genome|reference_genome_source: history single_paired|single_paired_selector: paired single_paired|collection|collection_selector: datasets reference_genome|reference: mm10_chrM.fa single_paired|collection|forward: mm10_chrM-1.f.fq |
abundance_tab: kallisto_quant_out1.tab |
mm10_chrM.fa mm10_chrM-1.f.fq mm10_chrM-1.r.fq kallisto_quant_out1.tab |
| Test-2 |
single_paired|single_paired_selector: paired single_paired|collection|reads: paired collection reference_genome|reference: mm10_chrM.fa reference_genome|reference_genome_source: history single_paired|collection|collection_selector: collection |
abundance_tab: kallisto_quant_out2.tab |
mm10_chrM.fa mm10_chrM-1.f.fq mm10_chrM-1.r.fq kallisto_quant_out2.tab |
| Test-3 |
single_paired|single_paired_selector: single single_paired|reads: mm10_chrM-1.f.fq reference_genome|reference: mm10_chrM.fa reference_genome|reference_genome_source: history |
abundance_tab: kallisto_quant_out3.tab |
mm10_chrM.fa mm10_chrM-1.f.fq kallisto_quant_out3.tab |
| Test-4 |
single_paired|collection|reverse: felCat8_chrM_R.fq reference_genome|reference_genome_source: history single_paired|single_paired_selector: paired single_paired|collection|collection_selector: datasets pseudobam: True reference_genome|reference: felCat8_chrM.fa single_paired|collection|forward: felCat8_chrM_F.fq |
abundance_tab: kallisto_quant_out4.tab pseudobam_output: kallisto_quant_out4.bam |
felCat8_chrM.fa felCat8_chrM_F.fq felCat8_chrM_R.fq kallisto_quant_out4.tab kallisto_quant_out4.bam |
| Test-5 |
single_paired|single_paired_selector: paired single_paired|collection|reverse: sacCer2_chrM_R.fq pseudobam: True single_paired|collection|collection_selector: datasets single_paired|collection|forward: sacCer2_chrM_F.fq.gz |
abundance_tab: kallisto_quant_out5.tab pseudobam_output: kallisto_quant_out5.bam |
sacCer2_chrM_F.fq.gz sacCer2_chrM_R.fq kallisto_quant_out5.tab kallisto_quant_out5.bam |
| Test-6 |
single_paired|collection|reverse: hg38_R.fq.gz reference_genome|reference_genome_source: history single_paired|single_paired_selector: paired fusion: True single_paired|collection|collection_selector: datasets reference_genome|reference: hg38_transcripts.fa single_paired|collection|forward: hg38_F.fq.gz |
fusion_output: fusion.txt |
hg38_transcripts.fa hg38_F.fq.gz hg38_R.fq.gz fusion.txt |