Workflow Type: Galaxy
Open
Stable
RNA-RNA interactome analysis using ChiRA tools suite. The aligner used is BWA-MEM.
Inputs
ID | Name | Description | Type |
---|---|---|---|
1st reference FASTA file | 1st reference FASTA file | n/a |
|
2nd reference FASTA file | 2nd reference FASTA file | n/a |
|
Annotation GTF file | Annotation GTF file | n/a |
|
Genomic FASTA file | Genomic FASTA file | n/a |
|
Reads FASTQ file | Reads FASTQ file | n/a |
|
Steps
ID | Name | Description |
---|---|---|
5 | Cutadapt | toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/1.16.5 |
6 | FastQC | toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1 |
7 | ChiRA collapse | toolshed.g2.bx.psu.edu/repos/iuc/chira_collapse/chira_collapse/1.4.3+galaxy0 |
8 | FastQC | toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1 |
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_6 | _anonymous_output_6 | n/a |
|
_anonymous_output_7 | _anonymous_output_7 | n/a |
|
_anonymous_output_8 | _anonymous_output_8 | n/a |
|
_anonymous_output_9 | _anonymous_output_9 | n/a |
|
_anonymous_output_10 | _anonymous_output_10 | n/a |
|
_anonymous_output_11 | _anonymous_output_11 | n/a |
|
_anonymous_output_12 | _anonymous_output_12 | n/a |
|
_anonymous_output_13 | _anonymous_output_13 | n/a |
|
_anonymous_output_14 | _anonymous_output_14 | n/a |
|
_anonymous_output_15 | _anonymous_output_15 | n/a |
|
_anonymous_output_16 | _anonymous_output_16 | n/a |
|
Version History
Version 1 (earliest) Created 3rd Nov 2020 at 19:46 by Pavankumar Videm
Added/updated 1 files
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c477acc
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Views: 3751 Downloads: 259 Runs: 0
Created: 3rd Nov 2020 at 19:46
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