Workflow Type: Galaxy
Open
Frozen
RNA-RNA interactome analysis using ChiRA tool suite
Associated Tutorial
This workflows is part of the tutorial RNA-RNA interactome data analysis - chira v1.4.3, 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 |
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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 |
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_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 |
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chimeric_reads | #main/chimeric_reads | n/a |
|
db | #main/db | n/a |
|
interactions | #main/interactions | n/a |
|
Version History
1.0 (latest) Created 16th Jul 2024 at 14:05 by Helena Rasche
Added/updated 4 files
Open
master
860a9a3
2.0 (earliest) Created 25th Jun 2024 at 11:20 by Helena Rasche
Added/updated 4 files
Frozen
2.0
68591c8
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
Creators
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Activity
Views: 187 Downloads: 80
Created: 25th Jun 2024 at 11:20
Last updated: 25th Jun 2024 at 11:20
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
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