NAME
wham-build - Wisconsin's High-Throughput Alignment Method
DESCRIPTION
Usage:
-
wham-build [options]* -l <int> <ref_sequence> <basepath> -l <int> specify the length of short reads <ref_sequence> comma-separated list of fiels with ref sequences <basepath> write wham data to files with this dir/basename
OPTIONS
- -v <int>
-
report hits with <=v errors (0-5), ignore qualities
- -p <int>
-
specify the number of fragments for alignments
- -m <int>
-
discard subsequences appearing more than <int> times (default: 100).
- -b <int>
-
specify the number of buckets
- -a
-
find all valid matches (need much more memory)
- --mask
-
keep masked characters in the sequences (default: on)
- --unmask
-
discard masked characters in the sequences. Masks are treated as Ns
- --version
-
print version information
- -h/--help
-
print this usage message
AUTHOR
This manpage was written by Nilesh Patra for the Debian distribution and
can be used for any other usage of the program.