This directory contains the data files required as input to the
liftOver utility. This tool -- which requires a Linux platform --
allows the mass conversion of coordinates from one assembly to
another. The executable file for the utility can be downloaded from
http://hgdownload.cse.ucsc.edu/admin/exe/liftOver.gz .

The file names reflect the assembly conversion data contained within
in the format <db1>To<Db2>.over.chain.gz. For example, a file named
hg15ToHg16.over.chain.gz file contains the liftOver data needed to
convert hg15 (Human Build 33) coordinates to hg16 (Human Build 34).
If no file is available for the assembly in which you're interested,
please send a request to the genome mailing list
(genome@soe.ucsc.edu) and we will attempt to provide you with one.

To download a large file or multiple files from this directory,
we recommend that you use ftp rather than downloading the files via our
website. To do so, ftp to hgdownload.cse.ucsc.edu (user: anonymous),
then cd to goldenPath/monDom5/liftOver.  To download multiple files,
use the "mget" command:

    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory)

-------------------------------------------------------
Please refer to the credits page
(http://genome.ucsc.edu/goldenPath/credits.html) for guidelines and
restrictions regarding data use for these assemblies.
-------------------------------------------------------
Alternate methods to ftp access.

Using an rsync command to download the entire directory:
    rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/monDom5/liftOver/ .
For a single file, e.g. monDom5ToHg18.over.chain.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/monDom5/liftOver/monDom5ToHg18.over.chain.gz .
    (Hg18 is merely an example here, not necessarily existing.)

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/monDom5/liftOver/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/monDom5/liftOver/monDom5ToHg18.over.chain.gz'  
        -O monDom5ToHg18.over.chain.gz

To uncompress the *.chain.gz files:
    gunzip <file>.chain.gz 
The liftOver utility can read the files in their .gz format,
it is not necessary to uncompress them to use with the liftOver command.
[ICO]NameLast modifiedSizeDescription

[DIR]Parent Directory  -  
[TXT]README.txt29-May-2009 14:39 2.3K 
[TXT]md5sum.txt19-Jan-2017 20:49 1.9K 
[   ]monDom5ToAilMel1.over.chain.gz04-Feb-2010 23:51 17M 
[   ]monDom5ToBosTau4.over.chain.gz23-Dec-2008 10:39 28M 
[   ]monDom5ToBosTau6.over.chain.gz01-Jun-2011 09:14 15M 
[   ]monDom5ToBosTau7.over.chain.gz27-Jan-2012 03:09 15M 
[   ]monDom5ToCalJac3.over.chain.gz14-Feb-2010 11:47 16M 
[   ]monDom5ToCanFam2.over.chain.gz09-Dec-2008 03:12 24M 
[   ]monDom5ToCerSim1.over.chain.gz29-Oct-2012 09:37 27M 
[   ]monDom5ToDanRer5.over.chain.gz20-Dec-2008 16:37 7.2M 
[   ]monDom5ToEquCab2.over.chain.gz01-Jul-2009 23:46 26M 
[   ]monDom5ToFelCat4.over.chain.gz12-Jun-2010 23:00 14M 
[   ]monDom5ToGalGal3.over.chain.gz20-Dec-2008 16:20 7.5M 
[   ]monDom5ToHg18.over.chain.gz23-Dec-2008 07:21 26M 
[   ]monDom5ToHg19.over.chain.gz15-Jun-2009 10:15 32M 
[   ]monDom5ToHg38.over.chain.gz29-May-2014 15:57 33M 
[   ]monDom5ToLoxAfr3.over.chain.gz12-Nov-2011 02:26 20M 
[   ]monDom5ToMacEug1.over.chain.gz25-Dec-2008 15:57 91M 
[   ]monDom5ToMelGal1.over.chain.gz30-Mar-2011 18:30 5.6M 
[   ]monDom5ToMelGal5.over.chain.gz19-Jan-2017 20:42 5.9M 
[   ]monDom5ToMm9.over.chain.gz21-Dec-2008 10:11 20M 
[   ]monDom5ToMm10.over.chain.gz02-Apr-2012 10:01 20M 
[   ]monDom5ToOrnAna1.over.chain.gz20-Dec-2008 08:22 21M 
[   ]monDom5ToOryCun2.over.chain.gz25-Jan-2010 09:29 13M 
[   ]monDom5ToOviAri1.over.chain.gz16-Apr-2010 20:31 10M 
[   ]monDom5ToPanTro2.over.chain.gz19-Dec-2008 01:42 25M 
[   ]monDom5ToPanTro3.over.chain.gz15-Mar-2011 12:31 31M 
[   ]monDom5ToPetMar2.over.chain.gz23-Oct-2012 21:06 2.1M 
[   ]monDom5ToPonAbe2.over.chain.gz19-Dec-2008 01:40 25M 
[   ]monDom5ToRheMac2.over.chain.gz16-Dec-2008 15:48 24M 
[   ]monDom5ToRheMac3.over.chain.gz21-Jul-2012 01:41 19M 
[   ]monDom5ToRn4.over.chain.gz05-Jun-2009 13:07 12M 
[   ]monDom5ToRn5.over.chain.gz02-Apr-2014 12:50 19M 
[   ]monDom5ToRn6.over.chain.gz13-Jan-2017 08:11 20M 
[   ]monDom5ToSarHar1.over.chain.gz01-May-2014 23:12 109M 
[   ]monDom5ToSusScr1.over.chain.gz22-Jan-2010 07:03 13M 
[   ]monDom5ToSusScr2.over.chain.gz27-Mar-2010 08:32 13M 
[   ]monDom5ToXenTro2.over.chain.gz19-Dec-2008 19:00 5.7M 
[   ]monDom5ToXenTro3.over.chain.gz23-Sep-2011 08:21 5.7M 

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