bio-base.yml

name: bio-base
channels:
  - conda-forge
  - bioconda
dependencies:
#  - fastqc
#  - multiqc
#  - afterqc
  - samtools
  - bwa
  - bowtie2
  - hisat2
  - star
  - bcftools # =1.18
  - vcftools
  - seqtk
  - seqkit
#  - freebayes
  - plink
  - plink2
  - micro
  - tabix
  - grabix
  - bedtools
  - pigz
  - bioawk
#  - trimmomatic
  - iqtree # =2.0
  - fasttree # =2.1
  - phylobayes-mpi
  - blast
  - diamond
  - raxml-ng
  - phyml
#  - mamba
  - mafft
  - sra-tools
  - gsl # =2.5
  - cd-hit
  - seqmagick
  - cutadapt
  - trinity
  - newick_utils
  - fastp
#  - Open MPI
#  - radian
#  - jupyter_console
  - miller=6
  - gawk