databio/refgenie:0.7.5

Raw Manifest

manifest:
  name: databio/refgenie
  version: 0.7.5
  commands:
  - command: bedtools
    docker_image: quay.io/biocontainers/bedtools:2.29.0--hc088bd4_3
  - command: bgzip
    docker_image: quay.io/biocontainers/htslib:1.6--0
  - command: bismark_genome_preparation
    docker_image: quay.io/biocontainers/bismark:0.22.1--0
  - command: bowtie2-build
    docker_image: quay.io/biocontainers/bowtie2:2.4.1--py37h4ef193e_2
  - command: bwa
    docker_image: quay.io/biocontainers/bwa:0.7.17--hed695b0_7
  - command: cellranger
    docker_image: quay.io/xujishu/cellranger:3.1.0
  - command: gt
    docker_image: quay.io/biocontainers/genometools-genometools:1.5.10--py37h997e34b_3
  - command: hisat2-build
    docker_image: quay.io/biocontainers/hisat2:2.2.0--py37h3340039_3
  - command: kallisto
    docker_image: quay.io/biocontainers/kallisto:0.46.2--h4f7b962_1
  - command: mashmap
    docker_image: quay.io/biocontainers/mashmap:2.0--h9dd4a16_2
  - command: pigz
    docker_image: nsheff/pigz
    docker_command: pigz
    docker_args: -i
  - command: salmon
    docker_image: combinelab/salmon:1.0.0
  - command: samtools
    docker_args: -i
    docker_image: quay.io/biocontainers/samtools:1.10--h9402c20_2
  - command: STAR
    docker_image: quay.io/biocontainers/star:2.7.3a--0
  - command: tabix
    docker_image: quay.io/biocontainers/htslib:1.6--0