glistquery(1)
print the frequencies of k-mers in a list file
Description
GLISTQUERY
NAME
glistquery - print the frequencies of k-mers in a list file
SYNOPSIS
glistquery <INPUTLIST> [OPTIONS]
OPTIONS
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-v, --version - print version information and exit | |
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-h, --help - print this usage screen and exit | |
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-stat - print statistics of the list file and exit | |
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-median - print min/max/median/average and exit | |
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-q, --query - single query word | |
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-f, --queryfile - list of query words in a file | |
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-s, --seqfile - FastA/FastQ file | |
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-l, --listfile - list file made by glistmaker | |
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-mm, --mismatch NUMBER - specify number of mismatches (default 0, can be used with -d and -dd) | |
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-p, --perfectmatch NUMBER - specify number of 3’ perfect matches (default 0) | |
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-min, --minfreq NUMBER - minimum frequency of the printed words (default 0) | |
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-max, --maxfreq NUMBER - maximum frequency of the printed words (default MAX_UINT) | |
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-all - in case of mismatches prints all found words | |
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-D - increase debug level |
EXAMPLES
You could find some usage examples in /usr/share/doc/genometester/README.GenomeTester4.md
SEE ALSO
glistmaker(1), glistcompare(1), gmer_caller(1), gmer_counter(1)