rMAP-1.0-Linux-installer.yml

name: rMAP-1.0
channels:
  - bioconda
  - conda-forge
  - defaults
dependencies:
  - abricate=1.0.1
  - fastqc=0.11.9
  - multiqc
  - snippy=4.6.0
  - snpeff=5.0
  - ncbi-amrfinderplus=3.10.16
  - prokka=1.14.6
  - prodigal=2.6.3
  - freebayes=1.3.5
  - unicycler=0.4.8
  - mlst=2.19.0
  - assembly-stats=1.0.1
  - sra-tools=2.11.0
  - bwa=0.7.17
  - kleborate=2.1.0
  - mafft=7.471
  - quast=5.0.2
  - r-base=4.1.1
  - trimmomatic=0.39
  - megahit=1.2.9
  - parallel
  - shovill=0.9.0
  - vt=2015.11.10
  - fasttree=2.1.10
  - samclip=0.4.0
  - nextflow=20.07.1
  - any2fasta=0.4.2
  - python=3.7.8
  - biopython.convert=1.0.3
  - iqtree=2.1.4_beta
  - bmge=1.12
  - samtools=1.12
  - roary=3.13.0
  - ismapper=2.0.1
  - lxml=4.6.3
  - cairosvg=2.4.2
  - sed=4.8