Category

Multiple sequence alignments / Conservation


Usage

mafGene dbName mafTable genePredTable species.lst output


Manual

This tool is part of UCSC Genome Browser's utilities.

arguments:
dbNamename of SQL database
mafTable name of maf file table
genePredTable name of the genePred table
species.lst list of species names
outputput output here
options:
-useFile genePredTable argument is a genePred file name
-geneName=foobarname of gene as it appears in genePred
-geneList=foolstname of file with list of genes
-geneBeds=foo.bed name of bed file with genes and positions
-chrom=chr1 name of chromosome from which to grab genes
-exons output exons
-noTrans don't translate output into amino acids
-includeUtr include the UTRs, use only with -noTrans
-delay=N delay N seconds between genes (default 0)
-noDashdon't output lines with all dashes


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