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CA SM - Correspondence Analysis - Factor Map

(1/11/94)

PURPOSE

Print selected factor map

SEE ALSO

CA MAP [Correspondence Analysis - nonlinear mapping]
CA S [Correspondence Analysis - find solution]
CA SI [Correspondence AnalysiS - initialize]
CA SME [Correspondence Analysis - factor map and Eigen Values]
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 SM

.(I)MAGE OR (P)IXEL: I
[Enter 'I' if you wish to have a map of images, and 'P' for a map of pixels.]

.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 ]

.FACTOR 2 NUMBERS: 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 the following question appears:

.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)].

For all options, the following question appears:

.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:<return>

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

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

.CLASS FILE: CLU002

In case the 'A' option was selected, the following questions appear:

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

SUBROUTINES

SGRAF, SGRAF1, HISMAP, HISMAP4, BORNS, EPUR4

CALLER

UTIL1

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