This file is from:

    http://hgdownload.cse.ucsc.edu/goldenPath/eboVir3/phastCons160way/README.txt

This directory contains compressed phastCons scores for multiple alignments
of 158 Ebola sequences and 2 Marburg virus sequences

Files in this directory:

  md5sum.txt - md5 sums to verify copied files
  accession.to.sequenceIdentifier.txt - relating the accession name to
                                        sequence name
  eboVir3.phastCons160way.mod - phastCons tree model for the 160 sequences
  eboVir3.phastCons160way.wigFix.gz - scores in fixed step wiggle format
  eboVir3.phastCons160way.bw - scores in bigWig format files

See also: http://genome.ucsc.edu/FAQ/FAQformat.html#format6.1
   for bigWig format description

For a description of the phastCons fixed step wiggle data file format, see:
http://genome.ucsc.edu/goldenPath/help/phastCons.html

The phyloP data can be found at:
http://hgdownload.cse.ucsc.edu/goldenPath/eboVir3/phyloP160way/

The multiple alignments and methods description are at:
http://hgdownload.cse.ucsc.edu/goldenPath/eboVir3/multiz160way/

For more information about this data, see the track
description for the Conservation track:
    http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=eboVir3&g=cons160way

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To download a large file or multiple files from this directory, we recommend 
that you use rsync or ftp rather than downloading the files via our website.

Via rsync:
rsync -avz --progress \
	rsync://hgdownload.cse.ucsc.edu/goldenPath/eboVir3/phastCons160way/ ./

Via FTP:
    ftp hgdownload.cse.ucsc.edu 
    user name: anonymous
    password: <your email address>
    go to the directory goldenPath/eboVir3/phastCons160way

To download multiple files from the UNIX command line, use the "mget" command. 
    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory) 
Use the "prompt" command to toggle the interactive mode if you do not want 
to be prompted for each file that you download.

---------------------------------------------------------------
All the files in this directory are freely available for public use.
For data use restrictions regarding the genome assemblies used in this
annotation, see http://genome.ucsc.edu/goldenPath/credits.html.

---------------------------------------------------------------
References for phastCons and phyloP:

Pollard KS, Hubisz MJ, Siepel A. Detection of non-neutral substitution rates
on mammalian phylogenies. Genome Res. 2010 Jan;20(1):110-21.
(http://genome.cshlp.org/content/20/1/110.long)

Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K, Clawson
H, Spieth J, Hillier LW, Richards S, et al. Evolutionarily conserved elements
in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005
Aug;15(8):1034-50.  (http://genome.cshlp.org/content/15/8/1034)

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[ICO]NameLast modifiedSizeDescription

[DIR]Parent Directory  -  
[TXT]README.txt28-Oct-2014 13:27 2.9K 
[TXT]accession.to.sequenceIdentifier.txt22-Oct-2014 10:59 3.8K 
[   ]eboVir3.phastCons160way.bw17-Oct-2014 12:23 75K 
[SND]eboVir3.phastCons160way.mod17-Oct-2014 11:24 5.9K 
[   ]eboVir3.phastCons160way.wigFix.gz17-Oct-2014 12:21 14K 
[TXT]md5sum.txt22-Oct-2014 11:12 306  

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