APDNS(Automatic pathogen diagnosis by nanopore sequencing)

• Usage:
  APDNS.sh -n barcode01 -i /input/ -s /APDNS/ -b SQK-PBK004
  *-n is the barcode ID.
  *-i is the input files. (.fastq.gz)
  *-s is the scripts pathway.
  *-b is the library preparation kit ID.
• Results description:
  *barcode01_nohuman.fastq: All reads of nonhuman species.
  *barcode01.output: Containing two columns of data, the first column is reads number of each species, the second column is species names.
  *barcode01.statistic.csv: Containing four columns (species name, read_num, RPM, % of microbe).
  read_num means reads number of each species.
  RPM means proportion of species reads in the total reads.
  % of microbe means proportion of species reads in the microbial reads.