Workflow Type: Galaxy
Open
Stable
Genome-wide alternative splicing analysis v.2.
Inputs
ID | Name | Description | Type |
---|---|---|---|
Active sites dataset | n/a | n/a |
|
CPAT header | n/a | n/a |
|
Genome annotation | n/a | n/a |
|
Pfam-A HMM Stockholm file | n/a | n/a |
|
Pfam-A HMM library | n/a | n/a |
|
Protein coding transcripts | n/a | n/a |
|
RNA-seq data collection | n/a | n/a |
|
Reference genome | n/a | n/a |
|
lncRNA transcripts | n/a | n/a |
|
Steps
ID | Name | Description |
---|---|---|
10_fastp | n/a | n/a |
11_Flatten collection | n/a | n/a |
12_RNA STAR | n/a | n/a |
13_FastQC | n/a | n/a |
14_Concatenate datasets | n/a | n/a |
15_MultiQC | n/a | n/a |
16_Text reformatting | n/a | n/a |
17_Cut | n/a | n/a |
18_Sort | n/a | n/a |
19_Unique | n/a | n/a |
20_RNA STAR | n/a | n/a |
21_Infer Experiment | n/a | n/a |
22_Junction Saturation | n/a | n/a |
23_Gene Body Coverage (BAM) | n/a | n/a |
24_Read Distribution | n/a | n/a |
25_Junction Annotation | n/a | n/a |
26_StringTie | n/a | n/a |
27_MultiQC | n/a | n/a |
28_StringTie merge | n/a | n/a |
29_StringTie | n/a | n/a |
30_gffread | n/a | n/a |
31_Extract element identifiers | n/a | n/a |
32_Search in textfiles | n/a | n/a |
33_Filter collection | n/a | n/a |
34_IsoformSwitchAnalyzeR | n/a | n/a |
35_IsoformSwitchAnalyzeR | n/a | n/a |
36_CPAT | n/a | n/a |
37_PfamScan | n/a | n/a |
38_Remove beginning | n/a | n/a |
39_Text reformatting | n/a | n/a |
40_Concatenate datasets | n/a | n/a |
41_IsoformSwitchAnalyzeR | n/a | n/a |
42_IsoformSwitchAnalyzeR | n/a | n/a |
9_Convert GTF to BED12 | n/a | n/a |
Version History
Version 1 (earliest) Created 25th May 2023 at 23:01 by Cristóbal Gallardo
Initial commit
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Created: 25th May 2023 at 23:01

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