Samtools - Sort Mapped Reads

Sort aligned reads according to mapped position on reference genome.

Location

• Filepath: <SnakeLines_dir>/rules/shared/mapping/postprocess/sorted/samtools.snake
• Rule name: samtools__sort_mapped_reads

Input(s):

• ref: Reference genomic sequences in fasta format
• bam: Unordered mapped reads in bam format

Output(s):

• bam: Ordered mapped reads according to their location on reference genome