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DDSM_README
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DDSM_README
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**************************************************************************
DDSM_README, last updated: August 8, 2000 by Mike Heath
**************************************************************************
**************************************************************************
The Digital Database for Screening Mammography (DDSM)
A collaborative effort between Massachusetts General Hospital,
Sandia National Laboratories, and the University of South Florida
Computer Science and Engineering Department
**************************************************************************
The database is completed, and contains 2620 cases. This is a mixture of
normal, benign, benign_without_callback and cancer volumes selected and
digitized specifically for DDSM. Volumes will be rotated on ftp as they
become available.
VOLUMES CURRENTLY ON-LINE: cancer_01
cancer_02
cancer_03
cancer_04
cancer_05
cancer_06
cancer_07
cancer_08
cancer_09
cancer_10
cancer_11
cancer_12
cancer_13
cancer_14
cancer_15
benign_03
benign_04
benign_05
benign_06
benign_07
benign_08
benign_09
benign_10
benign_11
benign_12
benign_13
benign_14
normal_01
normal_02
normal_03
normal_04
normal_05
normal_06
normal_07
normal_08
normal_09
normal_10
normal_11
normal_12
benign_without_callback_01
benign_without_callback_02
Each volume will also be available on an 8mm EXABYTE 160mXL data cartridge.
The information is written to the tape using UNIX tar command.
VOLUMES CURRENTLY AVAILABLE: normal_01
normal_02
normal_03
normal_04
normal_05
normal_06
normal_07
normal_08
normal_09
normal_10
normal_11
normal_12
cancer_01
cancer_02
cancer_03
cancer_04
cancer_05
cancer_06
cancer_07
cancer_08
cancer_09
cancer_10
cancer_11
cancer_12
cancer_13
cancer_14
cancer_15
benign_01
benign_02
benign_03
benign_04
benign_05
benign_06
benign_07
benign_08
benign_09
benign_10
benign_11
benign_12
benign_13
benign_14
benign_without_callback_01
benign_without_callback_02
To order a set of tapes, please send a check of $40.00 for for each tape
(plus $5 additional per tape for international orders). Print out the
order form (ftp://figment.csee.usf.edu/pub/DDSM/order_form) and include
it with your order.
Make check payable in U.S. dollars to:
UNIVERSITY OF SOUTH FLORIDA
Mail to:
Mary Parrish (Email: mparris3@csee.usf.edu)
University of South Florida
Department of Computer Science
4202 E. Fowler Ave.
ENB 118
Tampa, FL 33620-5399
Unfortunately, we are not set up to accept purchase orders or credit cards.
The order_form file in this directory is an order form in text format.
Please note that were are not able to provide anything from the database
on CD-ROM media. We have received many requests for them, but there is
no way we can do this (even if someone only requests a small portion of
the 230GB of mammography data). We are working to place much more of the
volumes on our ftp site to offer an alternative distribution option to
8mm tapes.
**************************************************************************
The database ftp site directory structure is organized as follows
DDSM
|
_____________________________________________________
| | | |
DDSM_README cases papers software
| |
________________________ ______________
| | | | | |
cancers normals benigns bin doc src
DDSM_README:
Is this file, which contains an overview of the database and latest
information on available volumes of cases.
cases:
Contains a directory for each category of cases. Currently the Categories
cancers, normals and benigns are available:
Under each category directory, there is a directory for each volume
of cases. Currently the volume normal_04 is available under the normals
category. Volumes cancer_01, cancer_02, cancer_03, cancer_04
cancer_05, cancer_06, cancer_07 and cancer_08 are available under the cancers
category. Volume benign_05 is available under the benigns category.
Under each volume directory, there is a directory for each case. The
number of cases in each volume will vary. The size of data in a volume
is limited by the capacity of a single 8mm tape. There are:
- 118 cases in volume normal_01.
- 117 cases in volume normal_02.
- 38 cases in volume normal_03.
- 57 cases in volume normal_04.
- 47 cases in volume normal_05.
- 60 cases in volume normal_06.
- 78 cases in volume normal_07.
- 27 cases in volume normal_08.
- 59 cases in volume normal_09.
- 23 cases in volume normal_10.
- 58 cases in volume normal_11.
- 20 cases in volume normal_12.
- 69 cases in volume cancer_01.
- 88 cases in volume cancer_02.
- 66 cases in volume cancer_03.
- 31 cases in volume cancer_04.
- 83 cases in volume cancer_05.
- 56 cases in volume cancer_06.
- 52 cases in volume cancer_07.
- 60 cases in volume cancer_08.
- 81 cases in volume cancer_09.
- 59 cases in volume cancer_10.
- 59 cases in volume cancer_11.
- 80 cases in volume cancer_12.
- 21 cases in volume cancer_13.
- 42 cases in volume cancer_14.
- 72 cases in volume cancer_15.
- 80 cases in volume benign_01.
- 69 cases in volume benign_02.
- 64 cases in volume benign_03.
- 81 cases in volume benign_04.
- 62 cases in volume benign_05.
- 74 cases in volume benign_06.
- 61 cases in volume benign_07.
- 64 cases in volume benign_08.
- 75 cases in volume benign_09.
- 21 cases in volume benign_10.
- 62 cases in volume benign_11.
- 64 cases in volume benign_12.
- 72 cases in volume benign_13.
- 21 cases in volume benign_14.
- 75 cases in volume benign_without_callback_01.
- 66 cases in volume benign_without_callback_02.
Each case directory contains 6 files: a text header file with .ics
extension which contains patient and image information, four jpeg
compressed raw images representing the left and right CC and MLO views,
and a reduced version of the four views concatenated to form a single
16 bits/pixel image in pgm format. In addition each abnormal view has
a text overlay file (ground truth) which describes abnormalities present
as marked by an expert radiologist. The actual abnormality location and
boundary in each image are defined by a chain-code.
----USEFUL TIP------------------------------------------------------------
You can ftp a full case directory by using ncftp (i.e.)
ncftp figment.csee.usf.edu (This will log you in as anonymous)
cd pub/DDSM/cases/cancers/cancer_03
get -R case1000
This will create the directory case1000 in your local machines working
directory and will copy each file contained in the case into your new
directory. Please note this particular volume may not always be on line.
--------------------------------------------------------------------------
papers:
This contains all papers related to DDSM including published papers,
progress reports and technical reports. Currently, it contains a
postscript version of the paper:
The Digital Database for Screening Mammography,
K. Bowyer, D. Kopans, W.P. Kegelmeyer, R. Moore,
M. Sallam, K. Chang and K. Woods,
In proceedings of the Third International Workshop on Digital Mammography,
Chicago, June 1996.
software:
This directory has all software distributed as part of the database.
The bin directory currently contains the following executables:
DDSMView: A utility for viewing ics cases created by Kyong (Jin) Chang,
at the Dept. of Computer Science and Engineering, USF.
ics2pgm: A utility for converting an ics case into 4 16 bit/pixel
pgm images created by Kyong (Jin) Chang, at the Dept. of
Computer Science and Engineering, USF.
jpeg: The jpeg compression program used by DDSMView and ics2pgm.
It was created by Portable Video Research Group (PVRG).
createTemplate:
This utility converts the overlay file which describes
abnormalities in a view using a chain-code representation
into a template in the form of an 8 bit/pixel pgm image.
Pixels in abnormal regions are set to one while the rest of
the image is set to 0. This utility was created by
Kyong (Jin) Chang, at the Dept. of Computer Science and
Engineering, USF.
compareTemplates:
This utility compares two templates of the form generated
by createTemplate. It can be used to compare the results
of a detection algorithm to the ground truth provided with
the images. The utility was created by Kevin Woods,
Dept. of Computer Science and Engineering, USF.
DDSMView, ics2pgm and jpeg were compiled on a Sun SPARCstation running
SunOS version 4.1.4 and tested on Sun SPARCstations running
SunOS versions up to 5.5. The remaining utilities were compiled
under SunOS version 5.5.
THE JPEG UTILITY MUST BE IN THE SAME DIRECTORY IN WHICH DDSMView OR
ics2pgm ARE RUN.
The src directory currently contains source code in C for the ics2pgm
utility to serve as an example of how to read cases in ics format.
It also contains source code for createTemplate and compareTemplates.
The doc directory contains documentation and pointers to documentations
for available software.
***************************************************************************
Comments or questions can be directed to ddsm@bigpine.csee.usf.edu
Information is also available on
http://marathon.csee.usf.edu/Mammography/Database.html
***************************************************************************