This directory contains reciprocal-best netted chains for geoFor1-taeGut2.

 - geoFor1.taeGut2.rbest.net.gz: geoFor1-referenced recip.best net to taeGut2.
 - geoFor1.taeGut2.rbest.chain.gz: chains extracted from the recip.best
   net.  These can be passed to the liftOver program to translate coords
   from geoFor1 to taeGut2 through the recip.best net.

 - taeGut2.geoFor1.rbest.net.gz: taeGut2-referenced recip.best net.
 - taeGut2.geoFor1.rbest.chain.gz: recip.best "liftOver" chains.

 - axtRBestNet/geoFor1.taeGut2.rbest.axt.gz reciprocal best alignments in
   AXT format

See also, description of AXT format::
    http://genome.ucsc.edu/goldenPath/help/axt.html
description of CHAIN format:
    http://genome.ucsc.edu/goldenPath/help/chain.html
description of NET format:
    http://genome.ucsc.edu/goldenPath/help/net.html