Mase(Functional groups)UNIX Programmer's ManualMase(Functional groups)



          NAME
               This is a list of _M_A_S_E _I_N_T_R_I_N_S_I_C _F_U_N_C_T_I_O_N_S organized
               into functional groups.

               BEWARE - THIS FILE IS NOT UP TO DATE !

          Moving the cursor vertically
               The following commands move the cursor from one
               sequence to another.

               JUMP-TO-LOCUS-NAME
               JUMP-TO-LOCUS-NUMBER
               MARK-JUMP
               MARK-SET
               MV-DOWN
               MV-UP


          Moving the cursor horizontally
               The following commands move the cursor to different
               positions within the same sequence.

               JUMP-TO-END-OF-SEQUENCE
               JUMP-TO-POSITION
               MARK-JUMP
               MARK-SET
               MV-DOWN
               MV-UP
               SEARCH
               SEARCH-AGAIN


          Modifying the data
               These functions deal with modifying the sequence and
               comments, and with rearranging the order of the
               sequences.

               AUTO-INSERT
               DEL-GAP
               DEL-BACK
               DELETE-COLUMNS
               EDIT-COMMENTS
               INS-GAP
               INSERT-COLUMNS
               MOVE-LOCUS-FILE
               MOVE-LOCUS-POSITION
               RENAME-LOCI
               SQUEEZE-OUT-GAPS
               ZAP-SEQUENCES






          Printed 11/1/88               DFCI                              1






          Mase(Functional groups)UNIX Programmer's ManualMase(Functional groups)



          Functions affecting the display
               CHARACTER-SET
               HIGHLIGHT-POSITION
               PATTERN-HIGHLIGHT
               REFRESH

          Functions affecting the MASE environment
               These functions modify the way _M_A_S_E behaves, either in
               it's main mode or in some of the other intrinsic func-
               tions.

               ALPHABETIZE-LISTS
               BIND
               LITERAL-NEXT
               MAP
               META-NEXT
               SET-VARIABLE
               TAKE
               UNBIND
               UNMAP


          Window manipulations
               _M_A_S_E provides a two-window environment for the user.
               The boundaries of these windows are modified via the
               following functions.

               MOVE-TO-INSIDE-LEFT
               MOVE-TO-INSIDE-RIGHT
               SHIFT-LEFT
               SHIFT-RIGHT
               SHIFT-LEFT-BOTH
               SHIFT-RIGHT-BOTH
               SHIFT-LEFT-BOTH-WIDE
               SHIFT-RIGHT-BOTH-WIDE
               SHIFT-LEFT-WIDE
               SHIFT-RIGHT-WIDE
               SHIFT-LEFT-WIDE-BOTH
               SHIFT-RIGHT-WIDE-BOTH
               SWAP-WINDOWS
               SYNCHRONIZE-WINDOWS


          Data analysis functions
               COLUMN-COMPOSITION
               COLUMN-CORRELATION
               CONSENSUS
               CONSENSUS-OFF  HOMOLOGY
               MATRIX

          Miscellaneous other functions
               @ABORT-COMMAND



          Printed 11/1/88               DFCI                              2






          Mase(Functional groups)UNIX Programmer's ManualMase(Functional groups)



               APROPOS
               BELL
               COMMAND-MODE
               GRIPE
               HELP
               INTERPRET-LINE
               LOAD
               OUTPUT-ALIGNED
               QUIT
               SAVE
               SAVE-CONSENSUS
               SHOW-BINDINGS
               SHOW-FUNCTIONS
               SHOW-MAPPINGS
               SHOW-VARIABLES
               STORE-ALL
               STORE-BINDINGS
               STORE-HISTORY
               STORE-MAPPINGS
               STORE-VARIABLES
               VIEW-COMMENTS


          EXAMPLES
          FILES
          SEE ALSO
               _I_N_T_R_I_N_S_I_C _F_U_N_C_T_I_O_N_S

          BUGS























          Printed 11/1/88               DFCI                              3