PROJECT=ecoli
RAWREADS=ecoli_filtered.fastq
GENOME_SIZE=4800000
THREADS=4
MIN_READ_LENGTH=2000
CNS_OVLP_OPTIONS="-kmer_size 13"
CNS_PCAN_OPTIONS="-p 100000 -k 100"
CNS_OPTIONS=""
CNS_OUTPUT_COVERAGE=30
TRIM_OVLP_OPTIONS="-skip_overhang"
TRIM_PM4_OPTIONS="-p 100000 -k 100"
TRIM_LCR_OPTIONS=""
TRIM_SR_OPTIONS=""
ASM_OVLP_OPTIONS=""
FSA_OL_FILTER_OPTIONS="--max_overhang=-1 --min_identity=-1"
FSA_ASSEMBLE_OPTIONS=""
CLEANUP=0
