| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.4.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.4.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.4 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.3.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.2.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.2.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.0.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.0 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.2.8 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.2.6.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.2.6 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.6 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.5 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.4 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.3 |
| toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2 |
| bowtie2 |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bowtie2 | 2.3.4 | package |
| samtools | 1.6 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
library|input_1: bowtie2-fq1.fq library|input_2: bowtie2-fq2.fq library|unaligned_file: False library|paired_options|paired_options_selector: no library|type: paired reference_genome|own_file: bowtie2-ref.fasta reference_genome|source: history analysis_type|analysis_type_selector: simple |
name: value |
bowtie2-fq1.fq bowtie2-fq2.fq bowtie2-ref.fasta value |
| Test-2 |
library|input_1: paired collection library|unaligned_file: False library|paired_options|paired_options_selector: no library|type: paired_collection reference_genome|own_file: bowtie2-ref.fasta reference_genome|source: history analysis_type|analysis_type_selector: simple |
name: value |
bowtie2-fq1.fq bowtie2-fq2.fq bowtie2-ref.fasta value |
| Test-3 |
library|input_1: bowtie2-fq1.fq library|input_2: bowtie2-fq2.fq library|unaligned_file: False library|paired_options|paired_options_selector: no library|type: paired reference_genome|own_file: bowtie2-ref.fasta reference_genome|source: history rg|read_group_id_conditional|ID: rg1 rg|PL: CAPILLARY rg|rg_selector: set analysis_type|analysis_type_selector: simple |
name: value |
bowtie2-fq1.fq bowtie2-fq2.fq bowtie2-ref.fasta value |
| Test-4 |
library|input_1: bowtie2-fq1.fq library|input_2: bowtie2-fq2.fq library|unaligned_file: False library|paired_options|paired_options_selector: no library|type: paired reference_genome|own_file: bowtie2-ref.fasta reference_genome|source: history analysis_type|analysis_type_selector: simple save_mapping_stats: True |
name: value name: value |
bowtie2-fq1.fq bowtie2-fq2.fq bowtie2-ref.fasta value |
| Test-5 |
library|input_1: bowtie2-fq_il.fq library|unaligned_file: False library|type: paired_interleaved reference_genome|own_file: bowtie2-ref.fasta reference_genome|source: history rg|read_group_id_conditional|ID: rg1 rg|PL: CAPILLARY rg|rg_selector: set analysis_type|analysis_type_selector: simple |
name: value |
bowtie2-fq_il.fq bowtie2-ref.fasta value |
| Test-6 |
library|input_1: bowtie2-fq1.fq.gz library|input_2: bowtie2-fq2.fq.gz library|unaligned_file: False library|paired_options|paired_options_selector: no library|type: paired reference_genome|own_file: bowtie2-ref.fasta reference_genome|source: history analysis_type|analysis_type_selector: simple |
name: value |
bowtie2-fq1.fq.gz bowtie2-fq2.fq.gz bowtie2-ref.fasta value |
| Test-7 |
library|input_1: bowtie2-fq1.fq.bz2 library|input_2: bowtie2-fq2.fq.bz2 library|unaligned_file: False library|paired_options|paired_options_selector: no library|type: paired reference_genome|own_file: bowtie2-ref.fasta reference_genome|source: history analysis_type|analysis_type_selector: simple |
name: value |
bowtie2-fq1.fq.bz2 bowtie2-fq2.fq.bz2 bowtie2-ref.fasta value |
| Test-8 |
library|input_1: bowtie2-fq1.fa library|input_2: bowtie2-fq2.fa library|unaligned_file: False library|paired_options|paired_options_selector: no library|type: paired reference_genome|own_file: bowtie2-ref.fasta reference_genome|source: history analysis_type|analysis_type_selector: simple |
name: value |
bowtie2-fq1.fa bowtie2-fq2.fa bowtie2-ref.fasta value |