Category
Generic
Usage
netClass [options] in.net tDb qDb out.net
Manual
This tool is part of UCSC Genome Browser's utilities.
tDb - database to fetch target repeat masker table information
qDb - database to fetch query repeat masker table information
options:
-tNewR=dir - Dir of chrN.out.spec files, with RepeatMasker .out format
lines describing lineage specific repeats in target
-qNewR=dir - Dir of chrN.out.spec files for query
-noAr - Don't look for ancient repeats
-qRepeats=table - table name for query repeats in place of rmsk
-tRepeats=table - table name for target repeats in place of rmsk
- for example: -tRepeats=windowmaskerSdust
-liftQ=file.lft - Lift in.net's query coords to chrom-level using
file.lft (for accessing chrom-level coords in qDb)
-liftT=file.lft - Lift in.net's target coords to chrom-level using
file.lft (for accessing chrom-level coords in tDb)
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