| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/bgruening/alevin/alevin/1.5.1+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/alevin/alevin/1.3.0+galaxy2 (this tool) |
| toolshed.g2.bx.psu.edu/repos/bgruening/alevin/alevin/1.3.0+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/alevin/alevin/0.14.1.2+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/alevin/alevin/0.14.1.2 |
| toolshed.g2.bx.psu.edu/repos/bgruening/alevin/alevin/0.14.1 |
| alevin |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| salmon | 1.3.0 | package |
| seqtk | 1.3 | package |
| samtools | 1.10 | package |
| vpolo | 0.2.0 | package |
| pandas | 1.0.3 | package |
| scipy | 1.4.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
refTranscriptSource|s_index|fasta: minitranscript.fa refTranscriptSource|TranscriptSource: history pairstraight|file1: fastqs/moreminifastq1.fastq.gz pairstraight|file2: fastqs/moreminifastq2.fastq.gz pairstraight|orientation: I pairstraight|strandedness: SR pairstraight|readselect: paired protocol: --chromium tgmap: minitxp.tsv optional|dumpFeatures: True optional|dumpMtx: True optional|keepCBFraction: 1 optional|freqThreshold: 5 |
name: value |
minitranscript.fa fastqs/moreminifastq1.fastq.gz fastqs/moreminifastq2.fastq.gz minitxp.tsv value |
| Test-2 |
refTranscriptSource|s_index|fasta: minitranscript.fa refTranscriptSource|TranscriptSource: history pairstraight|file1: fastqs/moreminifastq1.fastq.gz pairstraight|file2: fastqs/moreminifastq2.fastq.gz pairstraight|orientation: I pairstraight|strandedness: SR pairstraight|readselect: paired protocol: --chromium tgmap: minitxp.tsv optional|dumpFeatures: True optional|dumpMtx: True optional|numCellBootstraps: 2 optional|keepCBFraction: 1 optional|freqThreshold: 5 |
name: value |
minitranscript.fa fastqs/moreminifastq1.fastq.gz fastqs/moreminifastq2.fastq.gz minitxp.tsv value |