uc-echo1
Short-read error correction
Usage
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.
Releases
Unchanged in 6 releases since Debian 8 (Jessie).