This directory contains downloadable data set for the SGN map and marker
collections.

All data is organized in one of two formats:

CSV : Tab-delimited text files designed to be loaded into a spreadsheet
  (such as Excel) and read, or
FASTA : Simple sequence format, sometimes with annotations on the carat
  line.

---------------------------------------------------------------------


MAP DIRECTORIES

The map directories are all organized using the same format:

chromosome_N.csv is a tab-delimited file containing information for
  all markers on chromosome number N.
wholemap.csv contains all 12 chromosomes worth of data in one big file.

Each of these files is organized with the same column layout:

chromosome number
offset from top of chromosome (cM)
marker location type: cosegregate (frame) or interval
marker name 
confidence with which marker is thought to be there

Overall, there are 6 Map directories:

Eggplant-LXM_2000
Potato-TXB_1992
Tomato-EXHIR_1997
Tomato-EXPEN_1992
Tomato-EXPEN_2000
Tomato-EXPIMP_2001

To dynamically browse these maps, please visit:

  http://www.sgn.cornell.edu/cgi-bin/mapviewer/mapviewerHome.pl
  
  
----------------------------------------------------------------------


MARKERS DIRECTORY

The Markers folder contains the following three files:

marker_sequences.fasta
FASTA formatted sequences for all markers found on SGN.

location_annotated_marker_sequences.fasta
The same file as the above, but annotated with Map, chromosome, offset
and confidence information for each marker in its carat line.

marker_map_locations.csv
A tab-delimited file with one line for each time a marker appears
in our maps collection.  The columns of this file are organized as
follows:

marker name
map name
chromosome
offset from top of map (cM)
confidence

-------------------------------------------------------------------


If you have questions with regard to these datasets, or other aspects
of SGN, please contact us by emailing:

  sgn-feedback@sgn.cornell.edu