# DUM, DUMP

NAME
DUM, DUMP - dump selected numeric data to the console (standard output) or the the specified file.
SYNOPSIS

SHORT FORM | LONG FORM

DUM HYD
DUM HYD filename
DUM AVE
DUM AVE filename
DUM WEI
DUM WEI filename
DUM F1
DUM F1 filename
DUM F2
DUM F2 filename
DUM F3
DUM F3 filename
DUM F4
DUM F4 filename
DUM F5
DUM F5 filename
DUM F6
DUM F6 filename
DUM F7
DUM F7 filename

DUMP HYDROPHOBICITY
DUMP HYDROPHOBICITY filename
DUMP AVERAGE
DUMP AVERAGE filename
DUMP WEIGHTED
DUMP WEIGHTED filename
DUMP F1
DUMP F1 filename
DUMP F2
DUMP F2 filename
DUMP F3
DUMP F3 filename
DUMP F4
DUMP F4 filename
DUMP F5
DUMP F5 filename
DUMP F6
DUMP F6 filename
DUMP F7
DUMP F7 filename

DESCRIPTION
The command DUM (DUMP) may be used to dump selected numeric data to the console (standard output) or to the specified file. At present (version 1.6), the command DUMP may be used to dump hydrophobicity functions. Note that the selected hydrophobicity function should be calculated first, which is forced by executing the command PLOT (for example, PLOT AVERAGE will force the calculation of the average hydrophobicity). The output consists of two columns: The first column contains the residue serial number (integer) and the second column contains the requested value (floating point value). Sample output:

    # Raw hydrophobicity
           0    -3.63
           1     0.46
           2    -2.80
           3     1.25
           4    -0.46
           5    -1.15
           6    -3.64
           7    -0.50
           8    -1.81
           9     0.67
          10    -1.15

The first line is just a comment.
The simplest hydrophobicity function are the raw hydrophobicity and the average hydrophobicity. The weighted hydrophobicity was introduced in version 1.6. The hydrophobicity functions F1, F2, F3, F4 and F5 were introduced in version 1.4, and functions F6 F7 were introduced in version 1.6. These hydrophobicity functions are described in the following source files:
F1: hyphob_function1.c
F2: hyphob_function2.c
F3: hyphob_function3.c
F4: hyphob_function4.c
F5: hyphob_function5.c
F6: hyphob_function6.c
F7: hyphob_function7.c
KEYWORDS

KEYWORD (SHORT) | KEYWORD (LONG) | DESCRIPTION
HYD | HYDROPHOBICITY | Dump raw hydrophobicity values.
AVE | AVERAGE | Dump average hydrophobicity, using the current sliding window width.
WEI | WEIGHTED | Dump weighted hydrophobicity, defined in the source file weighted_hydrophobicity.c .
F1 | F1 | Dump hydrophobicity function F1.
F2 | F2 | Dump hydrophobicity function F2.
F3 | F3 | Dump hydrophobicity function F3.
F4 | F4 | Dump hydrophobicity function F4.
F5 | F5 | Dump hydrophobicity function F5.
F6 | F6 | Dump hydrophobicity function F6.
F7 | F7 | Dump hydrophobicity function F7.

EXAMPLES

COMMAND | DESCRIPTION
dump ave | Dump average hydrophobicity to the console.
dump hyd raw.data | Dump raw hydrophobicity values to the file called raw.data (file names are case sensitive).

NOTES
(1) A very simple output format was choosen to make it compatible with popular drawing programs.
RELATED COMMANDS
PLOT is used to draw the specified hydrophobicity function. It should be used before the command dump, to force the calculation of the specified hydrophobicity function. The only exception is raw hydrophobicity (keyword HYD) - it is assigned automatically.
WINDOW is used to define the sliding window width, which affects the average hydrophobicity function.