config.yml

admins: zhaocy.dut@gmail.com 
project_dir: /home/chunyu/nanoflow_tutorial

##### basecalling
raw_fast5_fp: /path/to/dir/raw/fast5/files
flowcell: FLO-MIN106
kit: SQK-RBK001

basecalled_fast5_fp1: /path/to/dir/fast5/files/1
basecalled_fast5_fp2: /path/to/dir/fast5/files/2

##### qc
##### make sure the following files are in the project_dir
barcodes_fp: barcodes.txt
genome_fp: GCF_000417085.fna
gene_fp: GCF_000417085.gff
short_reads_fp: short_reads

#### helper scripts
basecalling_cmp_fp: /home/chunyu/nanoflow/local/Basecalling-comparison
canu_genome_size: 5.6m
canu_fp: /home/chunyu/nanoflow/local/canu-1.8/Linux-amd64/bin
nanopolish_fp: /home/chunyu/nanoflow/local/nanopolish


quast_yaml_fp: /home/chunyu/nanoflow/quast.yaml
igv_prefs : {ENABLE_ANTIALIASING: true, NAME_PANEL_WIDTH: 360, SAM.MAX_VISIBLE_RANGE: 1000}
keep_unaligned: false
min_length: 5000