config_bismark.yaml

fastqfolder: /path/to/fastqfiles/
lambdagenome: /path/to/the/lambda/genome/folder/
humangenome: /path/to/the/human/genome/folder/
humangenomefa: /path/to/the/human/genome/folder/hg19.fa
target: resources/RRBS_regions20-200_hg19_chr.interval_list
genomebuild: GRCh37 # options: GRCh37, GRCh38, GRCm38 or GRCm39
sequencer: NovaSeq # options: NextSeq, NovaSeq or HiSeq
trimming: soft # options: hard, soft, none. Hard = if demultiplexed with adaptor sequence present. Soft = if correctly (no adaptorsequence in sample sheet) demultiplexed.
dualindex: True #options: True or False.
zerocov: False # options: True or False. If True, write 0-based cov files. Put "False" if you have no idea what this means.