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bam_coverage

description
Generates a BigWig coverage track using bamCoverage from DeepTools
outputs
{'bigwig': 'BigWig format coverage file'}

Inputs

Required

  • _runtime (Any, required)
  • bam (File, required): Input BAM format file to generate coverage for
  • bam_index (File, required): BAM index file corresponding to the input BAM

Defaults

  • modify_disk_size_gb (Int, default=0): Add to or subtract from dynamic disk space allocation. Default disk size is determined by the size of the inputs. Specified in GB.
  • ncpu (Int, default=4); description: Number of cores to allocate for task; common: true
  • prefix (String, default=basename(bam,".bam")): Prefix for the BigWig file. The extension .bw will be added.
  • use_all_cores (Boolean, default=false); description: Use all cores? Recommended for cloud environments.; common: true

Outputs

  • bigwig (File)