| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.4.0d-2 |
| toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.4.0d (this tool) |
| rna_star |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| rnastar | 2.4.0d | package |
| samtools | 0.1.19 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
outSAMstrandField: --outSAMstrandField intronMotif outSAMattributes: --outSAMattributes All singlePaired|sPaired: single singlePaired|input1: tophat_in2.fastqsanger refGenomeSource|genomeSource: history refGenomeSource|ownFile: tophat_test.fa jobName: rnastar_test outFilterIntronMotifs: --outFilterIntronMotifs RemoveNoncanonical |
output_log: rnastar_test.log splice_junctions: rnastar_test_splicejunctions.bed mapped_reads: rnastar_test_mapped_reads.bam |
tophat_in2.fastqsanger tophat_test.fa rnastar_test.log rnastar_test_splicejunctions.bed rnastar_test_mapped_reads.bam |
| Test-2 |
params|settingsType: full params|align_sjdb_overhang_min: 3 outSAMstrandField: --outSAMstrandField intronMotif outSAMattributes: --outSAMattributes All singlePaired|sPaired: single params|out_filter_score_min_over_l_read: 0.9 params|chim_segment_min: 0 params|chim_score_min: 0 singlePaired|input1: tophat_in2.fastqsanger refGenomeSource|genomeSource: history refGenomeSource|ownFile: tophat_test.fa jobName: rnastar_test params|seed_search_start_l_max: 25 outFilterIntronMotifs: --outFilterIntronMotifs RemoveNoncanonical |
output_log: rnastar_test2.log splice_junctions: rnastar_test2_splicejunctions.bed mapped_reads: rnastar_test2_mapped_reads.bam |
tophat_in2.fastqsanger tophat_test.fa rnastar_test2.log rnastar_test2_splicejunctions.bed rnastar_test2_mapped_reads.bam |