NAME

       uc-echo -  Short-read Error Correction

SYNOPSIS

       uc-echo [options] read_file_name

OPTIONS

       -h, --help
              show this help message and exit

       -o OUTPUT_FILENAME, --output=OUTPUT_FILENAME
              Output file name

       -l LOG_FILENAME, --log=LOG_FILENAME
              Log file name

       --DD=TMP_DIRECTORY, --tmp_dir=TMP_DIRECTORY
              Temporary data directory

       -u NCPU, --ncpu=NCPU
              Number of processes used in training

       -b BSIZE, --block_size=BSIZE
              Split data into blocks of specified size

       --nh=NHASH, --n_hash_block=NHASH
              Split hash table into n tables

       --rm=READ_MERGE, --read_merge_size=READ_MERGE
              Merge n hash tables at a time

       --hm=HASH_MERGE, --hash_merge_batch_size=HASH_MERGE
              Merge n adjacency lists at a time

       -k K, --kmer=K
              k-mer size used for hashing

       -e E, --min_error_tolerance=E
              Minimum error tolerance for parameter searching

       -E E, --max_error_tolerance=E
              Maximum error tolerance for parameter searching

       --hh=H, --min_minimum_overlap=H
              Minimum minimum overlap length for parameter searching

       --hH=H, --max_minimum_overlap=H
              Maximum minimum overlap length for parameter searching

       --h_rate=H_RATE, --heterozygous_rate=H_RATE
              Rate for heterozygous site

       --model_selection_size=MSIZE
              Model selection data set size

       --keep_all_files
              Keep all temporary files. By default, temporary files are deleted automatically.

       -h, --help
              show this help message and exit

       -o OUTPUT_FILENAME, --output=OUTPUT_FILENAME
              Output file name

       -l LOG_FILENAME, --log=LOG_FILENAME
              Log file name

       --DD=TMP_DIRECTORY, --tmp_dir=TMP_DIRECTORY
              Temporary data directory

       -u NCPU, --ncpu=NCPU
              Number of processes used in training

       -b BSIZE, --block_size=BSIZE
              Split data into blocks of specified size

       --nh=NHASH, --n_hash_block=NHASH
              Split hash table into n tables

       --rm=READ_MERGE, --read_merge_size=READ_MERGE
              Merge n hash tables at a time

       --hm=HASH_MERGE, --hash_merge_batch_size=HASH_MERGE
              Merge n adjacency lists at a time

       -k K, --kmer=K
              k-mer size used for hashing

       -e E, --min_error_tolerance=E
              Minimum error tolerance for parameter searching

       -E E, --max_error_tolerance=E
              Maximum error tolerance for parameter searching

       --hh=H, --min_minimum_overlap=H
              Minimum minimum overlap length for parameter searching

       --hH=H, --max_minimum_overlap=H
              Maximum minimum overlap length for parameter searching

       --h_rate=H_RATE, --heterozygous_rate=H_RATE
              Rate for heterozygous site

       --model_selection_size=MSIZE
              Model selection data set size

       --keep_all_files
              Keep all temporary files. By default, temporary files are deleted automatically.