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view rDiff/src/locfit/Source/lfcons.h @ 2:233c30f91d66
updated python based GFF parsing module which will handle GTF/GFF/GFF3 file types
author | vipints <vipin@cbio.mskcc.org> |
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date | Tue, 08 Oct 2013 07:15:44 -0400 |
parents | 0f80a5141704 |
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/* * Numeric values for constants used in locfit */ /* MXDIM and MXDEG are maximum dimension and local polynomial degree for Locfit. Note that some parts of the code may be more restrictive. */ #define MXDIM 15 #define MXDEG 7 /* floating point constants */ #ifndef PI #define PI 3.141592653589793238462643 #endif #define S2PI 2.506628274631000502415765 #define SQRT2 1.4142135623730950488 #define LOGPI 1.144729885849400174143427 #define GOLDEN 0.61803398874989484820 #define HL2PI 0.91893853320467267 /* log(2pi)/2 */ #define SQRPI 1.77245385090552 /* sqrt(pi) */ #define HUBERC 2.0 /* Criteria for adaptive local fitting mi[MACRI] 1: localized CP; 2: ICI (katkovnik); 3: curvature model index 4: Increase bandwidth until locfit returns LF_OK */ #define ANONE 0 #define ACP 1 #define AKAT 2 #define AMDI 3 #define AOK 4 /* vector of double precision parameters. 0, 1, 2 are the three components of the smoothing parameter. 3 cut parameter for adaptive evaluation structures. 4-8 are likelihood, degrees of freedom and residual variance, computed as part of the fit. Stored as the lf.dp vector. */ #define DALP 0 #define DFXH 1 #define DADP 2 #define DCUT 3 #define DLK 4 #define DT0 5 #define DT1 6 #define DRV 7 #define DSWT 8 #define DRSC 9 #define LEND 10 /* Evaluation structures mi[MEV] EFITP special for `interpolation' at fit points */ #define ENULL 0 #define ETREE 1 #define EPHULL 2 #define EDATA 3 #define EGRID 4 #define EKDTR 5 #define EKDCE 6 #define ECROS 7 #define EPRES 8 #define EXBAR 9 #define ENONE 10 #define ESPHR 11 #define EFITP 50 #define ESPEC 100 /* integer parameters: sample size; dimension; number of local parameters etc. stored as the lf.mi vector. */ #define MN 0 #define MP 1 #define MDEG0 2 #define MDEG 3 #define MDIM 4 #define MACRI 5 #define MKER 6 #define MKT 7 #define MIT 8 #define MMINT 9 #define MMXIT 10 #define MREN 11 #define MEV 12 #define MTG 13 #define MLINK 14 #define MDC 15 #define MK 16 #define MDEB 17 #define MGETH 18 #define MPC 19 #define MUBAS 20 #define LENM 21 /* Link functions mi[MLINK]. Mostly as in table 4.1 of the book. LDEFAU and LCANON are used to select default and canonical links respectively. LINIT shouldn't be selected by user... */ #define LINIT 0 #define LDEFAU 1 #define LCANON 2 #define LIDENT 3 #define LLOG 4 #define LLOGIT 5 #define LINVER 6 #define LSQRT 7 #define LASIN 8 /* components of vector returned by the links() function in family.c. ZLIK the likelihood; ZMEAN = estimated mean; ZDLL = derivative of log-likelihood; ZDDLL = - second derivative */ #define LLEN 4 #define ZLIK 0 #define ZMEAN 1 #define ZDLL 2 #define ZDDLL 3 /* weight functions mi[MKER]. see Table 3.1 or the function W() in weights.c for definitions. */ #define WRECT 1 #define WEPAN 2 #define WBISQ 3 #define WTCUB 4 #define WTRWT 5 #define WGAUS 6 #define WTRIA 7 #define WQUQU 8 #define W6CUB 9 #define WMINM 10 #define WEXPL 11 #define WMACL 12 #define WPARM 13 /* type of multivariate weight function mi[MKT] KSPH (spherical) KPROD (product) others shouldn't be used at present. */ #define KSPH 1 #define KPROD 2 #define KCE 3 #define KLM 4 #define KZEON 5 #define STANGL 4 #define STLEFT 5 #define STRIGH 6 #define STCPAR 7 /* Local likelihood family mi[MTG] for quasi-likelihood, add 64. */ #define TNUL 0 #define TDEN 1 #define TRAT 2 #define THAZ 3 #define TGAUS 4 #define TLOGT 5 #define TPOIS 6 #define TGAMM 7 #define TGEOM 8 #define TCIRC 9 #define TROBT 10 #define TRBIN 11 #define TWEIB 12 #define TCAUC 13 #define TPROB 14 /* Integration type mi[MIT] for integration in density estimation. */ #define INVLD 0 #define IDEFA 1 #define IMULT 2 #define IPROD 3 #define IMLIN 4 #define IHAZD 5 #define ISPHR 6 #define IMONT 7 /* For prediction functions, what to predict? PCOEF -- coefficients PT0 -- influence function PNLX -- ||l(x)|| PBAND -- bandwidth h(x) PDEGR -- local poly. degree PLIK -- max. local likelihood PRDF -- local res. d.f. PVARI -- ||l(x)||^2 */ #define PCOEF 1 #define PT0 2 #define PNLX 3 #define PBAND 4 #define PDEGR 5 #define PLIK 6 #define PRDF 7 #define PVARI 8 /* Residual Types */ #define RDEV 1 #define RPEAR 2 #define RRAW 3 #define RLDOT 4 #define RDEV2 5 #define RLDDT 6 #define RFIT 7 #define RMEAN 8 /* components of the colour vector */ #define CBAK 0 #define CAXI 1 #define CTEX 2 #define CLIN 3 #define CPOI 4 #define CCON 5 #define CCLA 6 #define CSEG 7 #define CPA1 8 #define CPA2 9 /* variable types: double, int, char, argument list */ #define VDOUBLE 0 #define VINT 1 #define VCHAR 2 #define VARGL 3 #define VPREP 4 #define VARC 5 #define VVARI 6 #define VXYZ 7 /* variable status */ #define STEMPTY 0 #define STREGULAR 1 #define STHIDDEN 3 #define STPLOTVAR 4 #define STSYSTEM 5 #define STSYSPEC 6 #define STREADFI 7 /* return status for the locfit() function */ #define LF_OK 0 #define LF_DONE 1 /* done - forced break from iterations */ #define LF_OOB 2 /* out of bounds, or large unstable parameter */ #define LF_PF 3 /* perfect fit; interpolation; deviance=0 */ #define LF_NCON 4 /* not converged */ #define LF_NSLN 5 /* no solution - eg separation in binomial. */ #define LF_NOPT 6 /* no or insufficient points with non-zero wt */ #define LF_INFA 7 /* initial failure e.g. log(0) */ #define LF_DEMP 10 /* density -- empty integration region */ #define LF_XOOR 11 /* density -- fit point outside xlim region */ #define LF_DNOP 12 /* density version of 6 */ #define LF_FPROB 80 #define LF_BADP 81 /* bad parameters e.g. neg prob for binomial */ #define LF_LNK 82 /* invalid link */ #define LF_FAM 83 /* invalid family */ #define LF_ERR 99 /* error */ /* * mi[MGETH] codes * scb(), pointwise codes are 71,...,75. * add 10 for simultaneous codes. */ #define GSTD 0 #define GHAT 1 #define GKAP 2 #define GRBD 3 #define GAMF 4 #define GAMP 5 #define GLSC 6 #define GSMP 7 #define GMIX 8 #define GLM1 71 #define GLM2 72 #define GLM3 73 #define GLM4 74 #define GLDN 75 /* bandwidth criteria */ #define BGCV 1 #define BCP 2 #define BIND 3