# Dynalign_object Member List

This is the complete list of members for Dynalign_object, including all inherited members.

align | Dynalign_object | `[private]`
AllocateForceAlign() | Dynalign_object | `[private]`
array | Dynalign_object | `[private]`
CommonConstructor() | Dynalign_object | `[private]`
compoundmessage | TwoRNA |
ct_templated | Dynalign_object | `[private]`
data | Dynalign_object | `[private]`
dsv_templated | Dynalign_object | `[private]`
Dynalign(const short int maxtrace, const short int bpwin, const short int awin, const short int percent, const short int imaxseparation=-99, const float gap=0.4, const bool singleinsert=true, const char savefile[]=NULL, const bool optimalonly=false, const short int singlefold_subopt_percent=30, const bool local=false, const short int numProcessors=1, const int maxpairs=-1) | Dynalign_object |
Dynalign_object() | Dynalign_object |
Dynalign_object(const char sequence1[], const char sequence2[], const bool IsRNA=true) | Dynalign_object |
Dynalign_object(const char filename1[], const int type1, const char filename2[], const int type2, const bool IsRNA=true) | Dynalign_object |
Dynalign_object(const char filename[]) | Dynalign_object |
Dynalign_object(const char *filename, const short maxtrace, const short bpwin, const short awin, const short percent) | Dynalign_object |
ErrorCodeTwo | TwoRNA | `[protected]`
forcealign | Dynalign_object | `[private]`
ForceAlignment(const int i, const int k) | Dynalign_object |
gap | Dynalign_object | `[private]`
GetBestPairEnergy(const int sequence, const int i, const int j) | Dynalign_object |
GetErrorCode() | TwoRNA |
GetErrorMessage(const int error) | Dynalign_object |
GetErrorMessageString(const int error) | TwoRNA |
GetForcedAlignment(const int i, const int seq) | Dynalign_object |
GetLowestEnergy() | Dynalign_object |
GetRNA1() | TwoRNA |
GetRNA2() | TwoRNA |
GetTemperature() | TwoRNA |
highend | Dynalign_object | `[private]`
lowend | Dynalign_object | `[private]`
lowest | Dynalign_object | `[private]`
MAXDSV | Dynalign_object | `[private]`
Maxtrace | Dynalign_object | `[private]`
modificationflag | Dynalign_object | `[private]`
ReadAlignmentConstraints(const char filename[]) | Dynalign_object |
savefileread | Dynalign_object | `[private]`
SetProgress(TProgressDialog &Progress) | Dynalign_object |
SetTemperature(double temperature) | TwoRNA |
StopProgress() | Dynalign_object |
storetemplatefilename(const char *name) | Dynalign_object | `[private]`
templatefilename | Dynalign_object | `[private]`
Templatefromct(const char ctfilename[]) | Dynalign_object |
Templatefromdsv(const char dsvfilename[], const float maxdsvchange) | Dynalign_object |
TwoRNA(const char sequence1[], const char sequence2[], bool IsRNA=true) | TwoRNA |
TwoRNA(const char filename1[], const int type1, const char filename2[], const int type2, bool IsRNA=true) | TwoRNA |
TwoRNA() | TwoRNA |
v | Dynalign_object | `[private]`
vmod | Dynalign_object | `[private]`
w | Dynalign_object | `[private]`
w3 | Dynalign_object | `[private]`
w5 | Dynalign_object | `[private]`
WriteAlignment(const char filename[]) | Dynalign_object |
~Dynalign_object() | Dynalign_object |
~TwoRNA() | TwoRNA |