/bioinfo-base-image

Base image for bioinformatics applications.

Primary LanguageDockerfile

This is a base image for all your alignment and qc needs based on miniconda3.

Feel free to extend/update this image with new software.

So far stuff that's included:

  • snakemake
  • python 2 & 3
  • R
  • fastqc
  • multiqc
  • samtools
  • hisat2
  • stringtie
  • gffcompare
  • rseqc
  • star
  • kallisto
  • trimmomatic
  • cutadapt
  • gnu-parallel
  • drop-seq tools 2.1.0
  • CITE-seq-Count
  • seqtk
  • picard
  • homer
  • subread

Added

  • seqkit

Updated

  • Picard

You can either use this as a base for your own docker image or extend this image with new tools if you find them generally useful.