foriin / PaintSHOP_DNA_QC

R script for assessing the DNA probes made in PaintSHOP (for Drosophila melanogaster)

PaintSHOP DNA QC

R script for assessing the uniqueness of DNA FISH oligo probes' mapping to dm6 genome. Probes are generated in PaintSHOP and loaded to the 'data' folder. Run the script 'probeQC.R' which will produce these plots in 'plots' directory: karyoplot and genomic probe counts

Requirements

• conda and mamba
• conda environment 'align' with bowtie2 and samtools installed

  conda config --add channels defaults
  conda config --add channels bioconda
  conda config --add channels conda-forge
  conda config --set channel_priority strict
  mamba create -n align -c bioconda bowtie2 samtools