absurd (CCP4)           - initial processing of intensity files from MADNES
act (CCP4)              - analyse coordinates
almn (CCP4)             - calculates rotation function overlap values using FFT techniques
alternate_origins (CCP4)- lists of alternate origins for different spacegroups
amore (CCP4)            - Jorge Navaza's state-of-the-art molecular replacement package
angles (CCP4)           - bond lengths, bond angles and dihedral angles from coordinate files
anisoanl (CCP4)         - analyses of anisotropic displacement parameters 
areaimol (CCP4)         - Analyse solvent accessible areas
arp_warp (CCP4)         - Automated Refinement Procedure for refining protein structures
axissearch (CCP4)       - Check short reciprocal lattive vectors- there may be an alternative definition of unit cell
baverage (CCP4)         - averages B over main and side chain atoms
bones2pdb (CCP4)        - Make a PDB pseudo-coordinate file from a bones file
bplot (CCP4)            - Plot temperature factor by residue
cad (CCP4)              - Collect and sort crystallographic reflection data from several files
cavenv (CCP4)           - Calculates cavities in macromolecular structures
cciflib (CCP4)          - Subroutine Library for handling CCIF files
ccp4 (CCP4)             - introduction to the CCP4 Program Suite under Unix
ccp4_installation (CCP4)- Installation of CCP4 suite
ccp4_interface_installation (CCP4)- Installation of CCP4 Interface 
ccp4i (CCP4)            - interface to the CCP4 programs & file display
ccp4mapwish (CCP4)      - custom wish interpreter required for MapSlicer
ccplib (CCP4)           - utility subroutine library
combat (CCP4)           - produces an MTZ file in multirecord form suitable for input to SCALA.
compar (CCP4)           - comparison of coordinates
contact (CCP4)          - computes various types of contacts in protein structures
coordconv (CCP4)        - Interconvert various coordinate formats
crossec (CCP4)          - interpolate X-ray cross sections and compute anomalous scattering factors
detwin (CCP4)           - detwins merohedrally twinned data
diskio (CCP4)           - low-level input/output subroutine library
distang (CCP4)          - Distances and angles calculation 
dm (CCP4)               - density modification package
dm_ncs_averaging (CCP4) - dm for ncs averaging
dm_skeletonisation (CCP4)- iterative skeletonisation using dm
dmmulti (CCP4)          - multi-xtal density modification package
dtrek2mtz (CCP4)        - converts d*trek scalemerge output into MTZ format
dyndom (CCP4)           - determine dynamic domains when two conformations are available
ecalc (CCP4)            - calculate normalised structure amplitudes
extend (CCP4)           - obsolete, please use MAPMASK
f2mtz (CCP4)            - Convert a formatted reflection file to MTZ format
fffear (CCP4)           - Fast Fourier Feature Recognition for density fitting
fffear fragment library (CCP4)- library of representative protein fragments for FFFEAR
ffjoin (CCP4)           - joining model fragments from FFFEAR
fft (CCP4)              - fast Fourier transform
fhscal (CCP4)           - Scaling of isomorphous derivative data using Kraut's method
findncs (CCP4)          - detect NCS operations automatically from heavy atom sites
freerflag (CCP4)        - tags each reflection in an MTZ file with a flag for cross-validation
freerunique (CCP4)      - convert FreeRflags between CCP4 and other formats
gensym (CCP4)           - generate sites by symmetry
geomcalc (CCP4)         - molecular geometry calculations
getax (CCP4)            - real space correlation search
harvesting (CCP4)       - harvesting data automatically and using datasets
havecs (CCP4)           - Generate heavy atom vectors
hgen (CCP4)             - generate hydrogen atom positions for proteins
hklplot (CCP4)          - plots a precession photo from an HKL data file
hklview (CCP4)          - displays zones of reciprocal space as pseudo-precession images
icoefl (CCP4)           - vectorially combined scaling of Fobs (Iobs) with partial Fc's
intro_mon_lib (CCP4)    - description of monomer library used in CCP4
ipdisp (CCP4)           - displays images from a variety of (crystallographic) sources
keyparse (CCP4)         - high-level keyword parsing subroutines
lib_list (CCP4)         - contents of multi-purpose monomer dictionary used by REFMAC
libcheck (CCP4)         - monomer library management program
libhtml (CCP4)          - Subroutine Library for inserting html tags into log files
library (CCP4)          - low-level C subroutine library
loggraph (CCP4)         - viewer for CCP4 formatted `log' files
lsqkab (CCP4)           - apply various transformations to coordinate files
makedict (CCP4)         - converts PDB file to TNT or PROTIN dictionaries and PROTIN to PDB
mama2ccp4 (CCP4)        - Convert between `mama' and Cambridge/CCP4 map formats
map2fs (CCP4)           - convert CCP4 map to XtalView fsfour format
mapdump (CCP4)          - print a dump of sections of a map file
mapexchange (CCP4)      - convert map between binary and formatted
maplib (CCP4)           - Subroutine Library for CCP4 map file handling
mapmask (CCP4)          - map/mask extend program
mapreplace (CCP4)       - Combine parts of 2 maps
maprot (CCP4)           - map skewing, interpolating, rotating, averaging and correlation masking program
mapsig (CCP4)           - print statistics on signal/noise for translation function map
mapslicer (CCP4)        - section viewer for CCP4 map files
maptona4 (CCP4)         - Convert binary map file to and from na4 ascii format
matthews_coef (CCP4)    - Misha Isupov's Jiffy to calculate Matthews coefficient
mlphare (CCP4)          - maximum likelihood heavy atom refinement and phase calculation
mmcifformat (CCP4)      - mmCIF file format as used in CCP4
modlib (CCP4)           - Subroutine Library for mathematical operations
molrep (CCP4)           - automated program for molecular replacement
mon_lib (CCP4)          - description of multi-purpose monomer dictionary used by REFMAC
mosflm (CCP4)           - MOSFLM version 6  for processing image plate and CCD data
mtz2various (CCP4)      - produces reflexion file for MULTAN, SHELX, TNT, X-PLOR/CNS, CIF or other ascii format
mtzMADmod (CCP4)        - Generate F+/F- or F/D from other for anomalous data
mtzdump (CCP4)          - dump data from an MTZ reflection data file
mtzformat (CCP4)        - MTZ file format for CCP4
mtzlib (CCP4)           - Subroutine Library for Reflection data file handling
mtzmnf (CCP4)           - Identify missing data entries in an MTZ file and replace with 

mtztona4 (CCP4)         - interconvert MTZ reflection file and ASCII format
mtzutils (CCP4)         - Reflection data files utility program
ncsmask (CCP4)          - averaging mask manipulation program
npo (CCP4)              - Molecule and map plotting
oasis (CCP4)            - A program for breaking phase ambiguity in OAS or SIR
omit (CCP4)             - program to calculate omit-maps according to Bhat procedure
overlapmap (CCP4)       - calculates the average of two maps
p842asc (CCP4)          - Read and write plot84 and ascii files
parser (CCP4)           - parser subroutine library
pdbformat (CCP4)        - PDB file format for CCP4
pdbset (CCP4)           - various useful manipulations on coordinate files
peakmax (CCP4)          - search for peaks in the electron density map
phistats (CCP4)         - Analysis of agreement between phase sets, and checking it against weighting factors
pltdev (CCP4)           - convert Plot84 meta-files to PostScript, Tektronix or HPGL
polarrfn (CCP4)         - fast rotation function which works in polar angles
polypose (CCP4)         - program for superimposing many multi-domain structures
postref (CCP4)          - Post-refinement of reflection data
procheck (CCP4)         - programs to check the Stereochemical Quality of Protein Structures
protin (CCP4)           - (not required, use new refmac)
rantan (CCP4)           - Direct Method module for the determination of heavy atom positions
rasmol (CCP4)           - Molecular Visualisation Program
rdent (CCP4)            - Create dictionary entries for Restrain from PDB file
rebatch (CCP4)          - alter batch numbers in an unmerged MTZ file
refmac (CCP4)           - (old version, use refmac5)
refmac5 (CCP4)          - macromolecular refinement program
reform (CCP4)           - reformatting coordinates
reindex (CCP4)          - produces an MTZ file with h k l reindexed and/or the symmetry changed
reindexing (CCP4)       - information about changing indexing regime
restrain (CCP4)         - macromolecular refinement program
revise (CCP4)           - estimates optimised value of the normalised anomalous scattering using MAD data
rfcorr (CCP4)           - Analysis of correlations between cross- and self-Rotation functions
rotaprep (CCP4)         - produces an MTZ file in multirecord form suitable for input to SCALA.
rotgen (CCP4)           - Program to simulate X-ray diffraction rotation images
rotmat (CCP4)           - interconverts CCP4/MERLOT/X-PLOR rotation angles
rsearch (CCP4)          - R-factor and correlation coefficient between Fcalc and Fobs
rsps (CCP4)             - heavy atom positions from derivative difference Patterson maps
rstats (CCP4)           - scale together two sets of F's
rwbrook (CCP4)          - Library Subroutines for handling the co-ordinate working format
rwcontents (CCP4)       - Count atoms by type
rwdict (CCP4)           - obsolete, please use MAKEDICT
sc (CCP4)               - analyse shape complementarity
scala (CCP4)            - scale together multiple observations of reflections
scalechoose (CCP4)      - information about choice of scaling program
scaleit (CCP4)          - derivative to native scaling
scalepack2mtz (CCP4)    - converts merged scalepack output into MTZ format
sfall (CCP4)            - Structure factor calculation and X-ray refinement using forward and reverse FFT
sfcheck (CCP4)          - program for assessing agreement between atomic model and X-ray data
sftools (CCP4)          - reflection data file utility program
sigmaa (CCP4)           - Improved Fourier coefficients using calculated phases
solomon (CCP4)          - density modification (phase improvement) by solvent flipping
sortmtz (CCP4)          - Sort a MTZ reflection data file
sortwater (CCP4)        - sort waters by the protein chain to which they "belong"
stereo (CCP4)           - Extract coordinates from stereo diagrams
stnet (CCP4)            - Generate stereographic net plot for use with polarrfn
surface (CCP4)          - surface accessibility program and for preparing input file to program volume
symlib (CCP4)           - Subroutine Library for handling symmetry operations
tffc (CCP4)             - Translation Function Fourier Coefficients
tlsanl (CCP4)           - analysis of TLS tensors and derived anisotropic U factors
topp (CCP4)             - a topological comparison program
tracer (CCP4)           - Lattice TRAnsformation and CEll Reduction
truncate (CCP4)         - obtain structure factor amplitudes using Truncate procedure
tutorial2000 (CCP4)     - tutorial material for CCP4 suite including  Data Processing, MAD phasing, Molecular Replacement and Refinement 
twinning (CCP4)         - dealing with data from twinned crystals
undupl (CCP4)           - remove duplicates from Madnes data, after Absurd
unique (CCP4)           - Generate a unique list of reflections
unix.m4 (CCP4)          - library routines for system interactions
vecref (CCP4)           - Vector-space refinement of heavy atom sites in isomorphous derivatives
vecsum (CCP4)           - program to deconvolute a Patterson function and solve the structure
vectors (CCP4)          - generates Patterson vectors from atomic coordinates
volume (CCP4)           - polyhedral volume around selected atoms
watertidy (CCP4)        - rationalise waters at the end of refinement
watncs (CCP4)           - Pick waters which follow NCS and sort out to NCS asymmetric unit
watpeak (CCP4)          - selects peaks from peakmax and puts them close to the respective protein atoms
wilson (CCP4)           - Wilson plot, absolute scale and temperature factor
xdl_view (CCP4)         - X-windows based toolkit
xdldataman (CCP4)       - manipulation, analysis and reformatting of reflection files
xdlmapman (CCP4)        - manipulation, analysis and reformatting of electron density maps
xloggraph (CCP4)        - a viewer of specially formatted `log' files
xplot84driver (CCP4)    - a viewer for Plot84 meta files
zeroed (CCP4)           - Set parts of map to zero
