RNA-RNA interactome data analysis - chira v1.4.3 1.0
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Run on GalaxyRNA-RNA interactome analysis using ChiRA tool suite
Associated Tutorial
This workflows is part of the tutorial RNA-RNA interactome data analysis, available in the GTN
Features
- Includes Galaxy Workflow Tests
Thanks to...
Tutorial Author(s): Pavankumar Videm
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| annotation_gtf | #main/annotation_gtf | n/a |
|
| genome_fasta | #main/genome_fasta | n/a |
|
| reads_fastq | #main/reads_fastq | n/a |
|
| reference1_fasta | #main/reference1_fasta | n/a |
|
| reference2_fasta | #main/reference2_fasta | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 5 | FastQC | toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1 |
| 6 | Cutadapt | toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/1.16.5 |
| 7 | FastQC | toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1 |
| 8 | ChiRA collapse | toolshed.g2.bx.psu.edu/repos/iuc/chira_collapse/chira_collapse/1.4.3+galaxy0 |
| 9 | ChiRA map | toolshed.g2.bx.psu.edu/repos/iuc/chira_map/chira_map/1.4.3+galaxy0 |
| 10 | ChiRA merge | toolshed.g2.bx.psu.edu/repos/iuc/chira_merge/chira_merge/1.4.3+galaxy0 |
| 11 | ChiRA qauntify | toolshed.g2.bx.psu.edu/repos/iuc/chira_quantify/chira_quantify/1.4.3+galaxy0 |
| 12 | ChiRA extract | toolshed.g2.bx.psu.edu/repos/iuc/chira_extract/chira_extract/1.4.3+galaxy0 |
| 13 | Query Tabular | toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| _anonymous_output_10 | #main/_anonymous_output_10 | n/a |
|
| _anonymous_output_11 | #main/_anonymous_output_11 | n/a |
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| _anonymous_output_12 | #main/_anonymous_output_12 | n/a |
|
| _anonymous_output_13 | #main/_anonymous_output_13 | n/a |
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| _anonymous_output_14 | #main/_anonymous_output_14 | n/a |
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| _anonymous_output_6 | #main/_anonymous_output_6 | n/a |
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| _anonymous_output_7 | #main/_anonymous_output_7 | n/a |
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| _anonymous_output_8 | #main/_anonymous_output_8 | n/a |
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| _anonymous_output_9 | #main/_anonymous_output_9 | n/a |
|
| chimeric_reads | #main/chimeric_reads | n/a |
|
| db | #main/db | n/a |
|
| interactions | #main/interactions | n/a |
|
Version History
master
Creators and Submitter
Views: 1352 Downloads: 190 Runs: 0
Created: 2nd Jun 2025 at 11:04
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Teams: Galaxy Training Network
Organizations: Galaxy
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