agat/agat_sp_add_introns
gene annotations
GTF conversion
Description
Add intronic elements to a gtf/gff file without intron features.
Inputs
Name | Type & Properties | Description |
|---|---|---|
--gff -f --ref --reffile | file required | Input GTF/GFF file. |
Outputs
Name | Type & Properties | Description |
|---|---|---|
--output -o --out --outfile --gtf | file required output | Output GFF3 file. |
Arguments
Name | Type & Properties | Description |
|---|---|---|
--config -c | file | AGAT config file. By default AGAT takes the original agat_config.yaml shipped with AGAT. The `--config` option gives you the possibility to use your own AGAT config file (located elsewhere or named differently). |
Run this component
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
output: "$id.$key.output.gff"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/biobox.git \
-revision v0.4.2 \
-main-script target/nextflow/agat/agat_sp_add_introns/main.nf \
-params-file params.yaml Relationships
Used by
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No components use this component.
Current component
agat/agat_sp_add_intronsbiobox v0.4.2
Uses
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