Custom - Infer Read GroupsΒΆ

Infer sample name, flow cell, barcode and lanes from the input BAM file from Illumina sequencing. Write meta information as read groups to the output bam file.

Location

  • Filepath: <SnakeLines_dir>/rules/shared/mapping/postprocess/read_group/custom.snake
  • Rule name: custom__infer_read_groups

Input(s):

  • bam: Mapped reads in BAM format

Output(s):

  • bam: Mapped reads with inferred read groups in BAM format

Param(s):

  • infer_script: File path to script that do real job here