change folders

.DS_Store

whole-genome-alignment/.DS_Store

whole-genome-alignment/README.md

whole-genome-alignment/env/wga.yaml

whole-genome-alignment/scripts/alignment_QC.R

whole-genome-alignment/scripts/array_wrapper.slurm

whole-genome-alignment/scripts/axtChain_commands.sh

whole-genome-alignment/scripts/chainSort_commands.sh

whole-genome-alignment/scripts/changeFilenameLoop.sh

whole-genome-alignment/scripts/count_DNA.py

whole-genome-alignment/scripts/create_jobs.sh

whole-genome-alignment/scripts/lastz.sh

whole-genome-alignment/scripts/lastz_commands.sh

whole-genome-alignment/scripts/maf-convert_commands.sh

whole-genome-alignment/scripts/parse_FASTA.py

whole-genome-alignment/scripts/repeatMasker.sh

whole-genome-alignment/scripts/repeatMaskerCommands.sh