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In additions to the output files listed in the cufflinks manual, cuffcompare also produces a .loci file. Can someone describe its content? Thanks.
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a locus (plural loci) is the specific location of a gene or DNA sequence on a chromosome.
SOURCE: sample loci file
XLOC_000001 chr1[+]x-y - transcript_id_0
For line 1-3:
col1: locus_id (ex - XLOC_000001)
col2: chromosome[strand]location (ex - chr1[+]x-y)
col3: list of transcript_id's within gene's locus (ex - transcript_id_0)Last edited by AndrewCarpenter; 07-21-2010, 09:34 AM.
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