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CA SME - Correspondence Analysis - Factor Map and Eigen Values

(4/1/96)

PURPOSE

Print selected factor map and/or list of eigenvalues.

SEE ALSO

CA MAP [Correspondence Analysis - nonlinear mapping]
CA S [Correspondence Analysis - find solution]
CA SI [Correspondence AnalysiS - initialize]
CA SM [Correspondence Analysis - factor map]
CA SR [Correspondence Analysis - full reconstitution of images]
CA SRD [Correspondence AnalysiS - reconstitute differential images]
CA SRI [Correspondence AnalysiS - reconstitute importance images]
CA SRP [Correspondence Analysis - PCA reconstitution]
CA VIS [Correspondence Analysis - Create visual map]

USAGE

.OPERATION: CA SME

.(I)MAGE OR (P)IXEL: I
[Enter 'I' if you wish to have a map of images, and 'P' for a map of pixels. For the 'CA SME' option. if only the list of eigenvalues is desired enter <return>.]

.COORDINATE FILE CODE, NO. OF HOR. PATCHES: 2,0
[Enter the CODE number identifying the three sequential files to store the output from the previous 'CA_S' run: IMC00#, PIX00#, EIG00#. The number of horizontal patches does not need to be specified, UNLESS this particular CORAN analysis was done on a set of correlation patch averages. In this case, a small lookup map is printed on the sheet preceding the actual map, which helps you trace the image numbers back to the patches they originated from in the image field. E.g., a set of 18 patch averages originating from 3 rows of 6 patches each would require the input NO. OF HOR. PATCHES = 6, and this would yield the lookup map:
1 2 3 4 5 6
7 8 9 10 11 12
13 14 15 16 17 18 ]

.'ENTER 2 FACTOR NUMBERS (e.g: 1,5): 1,4
[Enter the number identifying the factors for which the map is to be printed. Factor 1 is the first non-trivial factor.]

.(S)YMBOL, (A)SSIGN SYMBOL, (C)LASS, (D)OC, (I)D: I

[Enter 'S' if you want to enter a character symbol for each active image;
Enter 'I' if you want the numbers identifying the images or pixels to be printed. (this is the standard option for a CORAN map);]

If 'S', then:

.ENTER 1 CHAR. SYMBOL FOR ACTIVE IMAGES:

[The following additional options are for images only:
Enter 'A' if you want to assign symbols to specific ranges of ID numbers.
Enter 'C' if you want the class number of the image to appear as symbol (in this case, a classification file from a previous run of 'CA CLA' must be available);
Enter 'D' if you want to supply a specific symbol for each image. (in this case, a document file must be supplied that specifies the symbol lookup)].

.'PREPARE CONTOUR METAFILE FOR MAP? (Y/N/O): Y
[Option 'Y' prepares a contour metafile containing the map. Option 'N' lists map in RESULTS file only. Option 'O' prepares an contour plot metafile using an obsolete method which closely mirrors the data as shown in the results file.]

If the answer is "N" or "O' the following questions appear.

.NUMBER OF PAGES (1,2,3) OR <CR>=1: 2
[Specify number of pages for the map.]

.NUMBER OF LINES OR <CR>: <return>
[Default: horizontal space, known from the number of pages, is used to determine the number of lines. Enter a number if you want to override the default.]

For all answers, the following three questions appear:

.NUMBER OF SD OR <CR>=2.3: <return>
[The map is truncated for efficient visualization of the data cloud. Normal cutoff is set at 2.3 x standard deviation. Outliers outside the map are listed along with their coordinates, and printed exactly on the border.]

.1=FLIP #1/ 2=FLIP #2/ 3=FLIP 1+2/ <CR>=NO FLIP:

.TITLE: 70S ribosomal subunits in overlap range
[The title will appear on the top of the map.]

In case the 'C' option was selected, the name of the classification file will be solicited:

.CLASS FILE: CLU002

In case of 'A' option:

.SYMBOL: X
[enter symbol]

.Until ID #: 320
[Enter upper limit up to which the symbol should be used]

.SYMBOL: y

.UNTIL ID #: 320

[The questions continue until 0 or <ret> is entered for ID #.]

In case the 'D' option was selected, the name of the document file containing the symbol lookup will be solicited:

.LOOKUP FILE: DOC001

[the document file should contain a sequential key, the original image ID number (=Register 1), and the standard Fortran code number of the ASCII character to be used as symbol (=Register 2)].

If a plot line printer orinted plot map is desired the following question will appear:

.ENTER FILE NAME FOR THIS MAP PAGE: MAP001

If a contour plot metafile map was requested the following questions will appear:

.ENTER NAME FOR THIS MAP PAGE FILE: MAP001
[If the answer is "O' the name of the map file will be solicited for each page of the line printer oriented map.]

.TEXT SIZE FOR AXIS AND DATA (USE <CR> FOR DEFAULT = 24):24 48
[Allows control over text size if the output device supports this option. A size of 24 is a reasonable default.]

.ENTER X AXIS OFFSET:0

Bounds for X axis of plot listed.

.ENTER NEW LOWER, UPPER AXIS BOUNDS OR <CR>: <CR>
[Can change y axis bounds or keep default by entering <return>.]

X axis label units listed.

.ENTER NEW AXIS LABEL UNIT AND TICKS / LABEL OR <CR>: <CR>
[Can change X axis label unit or keep default]

.ENTER LABEL NO. TO EDIT. USE 0 FOR LABEL: 1
-1 TO RELIST ALL LABELS, OR <CR> TO CONTINUE: <CR>

Bounds for Y axis of plot listed.

.ENTER NEW LOWER, UPPER AXIS BOUNDS OR <CR>: <CR>

.ENTER Y AXIS OFFSET: 0

Y axis label units listed.

.ENTER NEW AXIS LABEL UNIT AND TICKS / LABEL OR <CR>: <CR>

.ENTER LABEL NO. TO EDIT. USE 0 FOR LABEL: 1
-1 TO RELIST ALL LABELS, OR <CR> TO CONTINUE: <CR>

NOTES

  1. The list of eigenvalues, their percentages, and cumulative percentages will be written on the terminal. IMPORTANT: if the operation 'CA S' was used with the 'Project' option (i.e., inactive co-projection of one image set into the factor space spanned by another image set), then is no eigenvector file with the file code specified, and option 'CA SME' cannot be used.

  2. Use 'CS DI PO' or WEB to display the contour metafile.

SUBROUTINES

SGRAF, SGRAF1, HISMAP, HISMAP4, BORNS

CALLER

UTIL1

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