WGS-processing/yml/helper/bwamem-gatk-report-wf.yml

   1 sample: ERR1726424
   2
   3 reference:
   4   class: File
   5   format: edam:format_1929
   6   location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
   7
   8 fastq1:
   9   class: File
  10   format: edam:format_1930
  11   location: keep:c96565a96cd428fe92bf70e97488bd80+21857/ERR1726424_1.fastq/ERR1726424_1.fastq.gz
  12
  13 fastq2:
  14   class: File
  15   format: edam:format_1930
  16   location: keep:0ea6e3aaa6ead18a2cc4ba67a22939e9+25007/ERR1726424_2.fastq/ERR1726424_2.fastq.gz
  17
  18 clinvarvcf:
  19   class: File
  20   format: edam:format_3016
  21   location: keep:242ba3b9049aee86ab2c72db4f3b2822+223/38/clinvar.vcf.gz
  22
  23 reportfunc:
  24   class: File
  25   location: ../src/annotation/generatereport.py
  26
  27 headhtml:
  28   class: File
  29   format: edam:format_1964
  30   location: /data-sdd/pgp/arvados-tutorial/src/annotation/head.html
  31
  32 tailhtml:
  33   class: File
  34   format: edam:format_1964
  35   location: /data-sdd/pgp/arvados-tutorial/src/annotation/tail.html
  36
  37 scattercount: '32'
  38
  39 knownsites:
  40   class: File
  41   format: edam:format_3016
  42   location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz