convert_gtf_to_granges
Reads a GTF file into a GRanges object and saves the object as an RDS file.
moduleInputs
Channel name | Description | Type |
---|---|---|
opt | A map of task-specific variables. | map |
tag | A unique identifier to use in the tag directive. | string |
genome | Name of the genome, eg “mm10 + GFP”. This is used to create the Seqinfo object. | string |
gtf | Path to the GTF file. | file |
fai | Path to a FastA index file for the genome that the GTF is relevant to. This is used to create the Seqinfo object. | file |
Outputs
Emission name | Description | Type | Filename pattern |
---|---|---|---|
opt | A map of task-specific variables. | map | |
task | YAML-formatted file of task parameters and software versions used by the task. | file | task.yaml |
granges | RDS obejct of a GRanges object. | file | granges.rds |
Tools
genomicranges
The GenomicRanges package defines general purpose containers for storing and manipulating genomic intervals and variables defined along a genome.
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