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numcosmo-docs.sgml
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<?xml version="1.0"?>
<!DOCTYPE book PUBLIC "-//OASIS//DTD DocBook XML V4.3//EN"
"http://www.oasis-open.org/docbook/xml/4.3/docbookx.dtd"
[
<!ENTITY % local.common.attrib "xmlns:xi CDATA #FIXED 'http://www.w3.org/2003/XInclude'">
]>
<book id="index">
<xi:include href="xml/manual_head.xml"/>
<chapter>
<title>NumCosmo Overview</title>
<xi:include href="introduction.xml"/>
<xi:include href="refs.xml"/>
<xi:include href="xml/build_cfg.xml"/>
</chapter>
<chapter>
<title>Numcosmo Math</title>
<section>
<title>Miscellaneous Objects</title>
<xi:include href="xml/ncm_c.xml"/>
<xi:include href="xml/ncm_cfg.xml"/>
<xi:include href="xml/ncm_util.xml"/>
<xi:include href="xml/ncm_iset.xml"/>
<xi:include href="xml/ncm_diff.xml"/>
<xi:include href="xml/ncm_dtuple.xml"/>
<xi:include href="xml/ncm_vector.xml"/>
<xi:include href="xml/ncm_matrix.xml"/>
<xi:include href="xml/ncm_nnls.xml"/>
<xi:include href="xml/ncm_serialize.xml"/>
<xi:include href="xml/ncm_obj_array.xml"/>
<xi:include href="xml/ncm_integral1d.xml"/>
<xi:include href="xml/ncm_integral1d_ptr.xml"/>
<xi:include href="xml/ncm_integral_nd.xml"/>
<xi:include href="xml/ncm_lapack.xml"/>
<xi:include href="xml/ncm_func_eval.xml"/>
<xi:include href="xml/ncm_timer.xml"/>
<xi:include href="xml/ncm_rng.xml"/>
<xi:include href="xml/ncm_quaternion.xml"/>
<xi:include href="xml/ncm_cblas.xml"/>
</section>
<section>
<title>MPI Objects</title>
<xi:include href="xml/ncm_mpi_job.xml"/>
<xi:include href="xml/ncm_mpi_job_test.xml"/>
<xi:include href="xml/ncm_mpi_job_fit.xml"/>
<xi:include href="xml/ncm_mpi_job_mcmc.xml"/>
<xi:include href="xml/ncm_mpi_job_feval.xml"/>
</section>
<section>
<title>FFTLog</title>
<xi:include href="xml/ncm_fftlog.xml"/>
<xi:include href="xml/ncm_fftlog_sbessel_j.xml"/>
<xi:include href="xml/ncm_fftlog_sbessel_jljm.xml"/>
<xi:include href="xml/ncm_fftlog_tophatwin2.xml"/>
<xi:include href="xml/ncm_fftlog_gausswin2.xml"/>
</section>
<section>
<title>Splines 1D</title>
<xi:include href="xml/ncm_spline.xml"/>
<xi:include href="xml/ncm_spline_gsl.xml"/>
<xi:include href="xml/ncm_spline_cubic.xml"/>
<xi:include href="xml/ncm_spline_cubic_notaknot.xml"/>
<xi:include href="xml/ncm_spline_cubic_d2.xml"/>
<xi:include href="xml/ncm_spline_rbf.xml"/>
<xi:include href="xml/ncm_spline_func.xml"/>
<xi:include href="xml/ncm_spline_func_test.xml"/>
<xi:include href="xml/ncm_ode_spline.xml"/>
</section>
<section>
<title>Splines 2D</title>
<xi:include href="xml/ncm_spline2d.xml"/>
<xi:include href="xml/ncm_spline2d_spline.xml"/>
<xi:include href="xml/ncm_spline2d_bicubic.xml"/>
<xi:include href="xml/ncm_spline2d_gsl.xml"/>
</section>
<section>
<title>Power spectrum functions</title>
<xi:include href="xml/ncm_powspec.xml"/>
<xi:include href="xml/ncm_powspec_corr3d.xml"/>
<xi:include href="xml/ncm_powspec_filter.xml"/>
<xi:include href="xml/ncm_powspec_sphere_proj.xml"/>
<xi:include href="xml/ncm_powspec_spline2d.xml"/>
</section>
<section>
<title>Harmonic Oscillator</title>
<xi:include href="xml/ncm_hoaa.xml"/>
<xi:include href="xml/ncm_csq1d.xml"/>
</section>
<section>
<title>Special Functions</title>
<xi:include href="xml/ncm_mpsf_trig_int.xml"/>
<xi:include href="xml/ncm_mpsf_0F1.xml"/>
<xi:include href="xml/ncm_mpsf_sbessel.xml"/>
<xi:include href="xml/ncm_sf_sbessel.xml"/>
<xi:include href="xml/ncm_sf_spherical_harmonics.xml"/>
</section>
<section>
<title>Models and Parameters</title>
<xi:include href="xml/ncm_model.xml"/>
<xi:include href="xml/ncm_sparam.xml"/>
<xi:include href="xml/ncm_vparam.xml"/>
<xi:include href="xml/ncm_model_ctrl.xml"/>
<xi:include href="xml/ncm_model_builder.xml"/>
<xi:include href="xml/ncm_mset.xml"/>
<xi:include href="xml/ncm_mset_func.xml"/>
<xi:include href="xml/ncm_mset_func1.xml"/>
<xi:include href="xml/ncm_mset_func_list.xml"/>
</section>
<section>
<title>Reparametrization</title>
<xi:include href="xml/ncm_reparam.xml"/>
<xi:include href="xml/ncm_reparam_linear.xml"/>
</section>
<section>
<title>Data Objects</title>
<xi:include href="xml/ncm_data.xml"/>
<xi:include href="xml/ncm_dataset.xml"/>
<xi:include href="xml/ncm_data_gauss.xml"/>
<xi:include href="xml/ncm_data_gauss_diag.xml"/>
<xi:include href="xml/ncm_data_gauss_cov.xml"/>
<xi:include href="xml/ncm_data_poisson.xml"/>
<xi:include href="xml/ncm_data_dist1d.xml"/>
<xi:include href="xml/ncm_data_dist2d.xml"/>
</section>
<section>
<title>Statistical Analysis</title>
<xi:include href="xml/ncm_stats_vec.xml"/>
<xi:include href="xml/ncm_stats_dist1d.xml"/>
<xi:include href="xml/ncm_stats_dist1d_spline.xml"/>
<xi:include href="xml/ncm_stats_dist1d_epdf.xml"/>
<xi:include href="xml/ncm_stats_dist2d.xml"/>
<xi:include href="xml/ncm_stats_dist2d_spline.xml"/>
<xi:include href="xml/ncm_bootstrap.xml"/>
<xi:include href="xml/ncm_likelihood.xml"/>
<xi:include href="xml/ncm_prior.xml"/>
<xi:include href="xml/ncm_prior_gauss.xml"/>
<xi:include href="xml/ncm_prior_gauss_param.xml"/>
<xi:include href="xml/ncm_prior_gauss_func.xml"/>
<xi:include href="xml/ncm_prior_flat.xml"/>
<xi:include href="xml/ncm_prior_flat_param.xml"/>
<xi:include href="xml/ncm_prior_flat_func.xml"/>
<xi:include href="xml/ncm_mset_catalog.xml"/>
<xi:include href="xml/ncm_mset_trans_kern.xml"/>
<xi:include href="xml/ncm_mset_trans_kern_flat.xml"/>
<xi:include href="xml/ncm_mset_trans_kern_gauss.xml"/>
<xi:include href="xml/ncm_mset_trans_kern_cat.xml"/>
<xi:include href="xml/ncm_fit_state.xml"/>
<xi:include href="xml/ncm_fit.xml"/>
<xi:include href="xml/ncm_fit_nlopt.xml"/>
<xi:include href="xml/ncm_fit_nlopt_enum.xml"><xi:fallback /></xi:include>
<xi:include href="xml/ncm_fit_gsl_ls.xml"/>
<xi:include href="xml/ncm_fit_gsl_mm.xml"/>
<xi:include href="xml/ncm_fit_gsl_mms.xml"/>
<xi:include href="xml/ncm_fit_levmar.xml"/>
<xi:include href="xml/ncm_fit_mc.xml"/>
<xi:include href="xml/ncm_fit_mcbs.xml"/>
<xi:include href="xml/ncm_lh_ratio1d.xml"/>
<xi:include href="xml/ncm_lh_ratio2d.xml"/>
<xi:include href="xml/ncm_abc.xml"/>
</section>
<section>
<title>Multivariate density estimation</title>
<xi:include href="xml/ncm_stats_dist.xml"/>
<xi:include href="xml/ncm_stats_dist_kde.xml"/>
<xi:include href="xml/ncm_stats_dist_vkde.xml"/>
<xi:include href="xml/ncm_stats_dist_kernel.xml"/>
<xi:include href="xml/ncm_stats_dist_kernel_gauss.xml"/>
<xi:include href="xml/ncm_stats_dist_kernel_st.xml"/>
</section>
<section>
<title>MCMC and ESMCMC</title>
<xi:include href="xml/ncm_fit_mcmc.xml"/>
<xi:include href="xml/ncm_fit_esmcmc.xml"/>
<xi:include href="xml/ncm_fit_esmcmc_walker.xml"/>
<xi:include href="xml/ncm_fit_esmcmc_walker_stretch.xml"/>
<xi:include href="xml/ncm_fit_esmcmc_walker_walk.xml"/>
<xi:include href="xml/ncm_fit_esmcmc_walker_apes.xml"/>
</section>
<section>
<title>MCMC Testing</title>
<xi:include href="xml/ncm_model_mvnd.xml"/>
<xi:include href="xml/ncm_data_gauss_cov_mvnd.xml"/>
<xi:include href="xml/ncm_model_rosenbrock.xml"/>
<xi:include href="xml/ncm_data_rosenbrock.xml"/>
<xi:include href="xml/ncm_data_gaussmix2d.xml"/>
<xi:include href="xml/ncm_model_funnel.xml"/>
<xi:include href="xml/ncm_data_funnel.xml"/>
</section>
<section>
<title>Spherical maps and Healpix</title>
<xi:include href="xml/ncm_sphere_map.xml"/>
</section>
<section>
<title>GObject introspection compatibility</title>
<xi:include href="xml/ncm_gir_scan.xml"/>
</section>
</chapter>
<chapter>
<title>Cosmological Models</title>
<xi:include href="xml/nc_hicosmo.xml"/>
<xi:include href="xml/nc_hicosmo_priors.xml"/>
<xi:include href="xml/nc_hicosmo_lcdm.xml"/>
<xi:include href="xml/nc_hicosmo_gcg.xml"/>
<xi:include href="xml/nc_hicosmo_idem2.xml"/>
<xi:include href="xml/nc_de_cont.xml"/>
<section>
<title>Darkenergy</title>
<xi:include href="xml/nc_hicosmo_de.xml"/>
<xi:include href="xml/nc_hicosmo_de_reparam_ok.xml"/>
<xi:include href="xml/nc_hicosmo_de_reparam_cmb.xml"/>
<xi:include href="xml/nc_hicosmo_de_xcdm.xml"/>
<xi:include href="xml/nc_hicosmo_de_wspline.xml"/>
<xi:include href="xml/nc_hicosmo_de_cpl.xml"/>
<xi:include href="xml/nc_hicosmo_de_jbp.xml"/>
</section>
<section>
<title>Quantum Gravity Bounce</title>
<xi:include href="xml/nc_hicosmo_qgrw.xml"/>
<xi:include href="xml/nc_hicosmo_Vexp.xml"/>
</section>
<section>
<title>Kinematic Models</title>
<xi:include href="xml/nc_hicosmo_qconst.xml"/>
<xi:include href="xml/nc_hicosmo_qlinear.xml"/>
<xi:include href="xml/nc_hicosmo_qspline.xml"/>
<xi:include href="xml/nc_hicosmo_qrbf.xml"/>
</section>
</chapter>
<chapter>
<title>Primordial Cosmology Models</title>
<xi:include href="xml/nc_hiprim.xml"/>
<section>
<title>Inflationary</title>
<xi:include href="xml/nc_hiprim_power_law.xml"/>
<xi:include href="xml/nc_hiprim_atan.xml"/>
<xi:include href="xml/nc_hiprim_expc.xml"/>
<xi:include href="xml/nc_hiprim_bpl.xml"/>
<xi:include href="xml/nc_hiprim_sbpl.xml"/>
</section>
</chapter>
<chapter>
<title>Observational Cosmology Models</title>
<section>
<title>Planck Foreground and Instrument Models</title>
<xi:include href="xml/nc_planck_fi.xml"/>
<xi:include href="xml/nc_planck_fi_cor_tt.xml"/>
<xi:include href="xml/nc_planck_fi_cor_ttteee.xml"/>
</section>
<section>
<title>Supernova Covariance Models</title>
<xi:include href="xml/nc_snia_dist_cov.xml"/>
</section>
</chapter>
<chapter>
<title>Cosmological Calculators</title>
<xi:include href="xml/nc_distance.xml"/>
<xi:include href="xml/nc_scalefactor.xml"/>
<xi:include href="xml/nc_recomb.xml"/>
<xi:include href="xml/nc_recomb_seager.xml"/>
<xi:include href="xml/nc_recomb_cbe.xml"/>
<xi:include href="xml/nc_hireion.xml"/>
<xi:include href="xml/nc_hireion_camb.xml"/>
<xi:include href="xml/nc_hireion_camb_reparam_tau.xml"/>
<xi:include href="xml/nc_hiqg_1d.xml"/>
</chapter>
<chapter>
<title>Perturbations</title>
<xi:include href="xml/nc_hipert.xml"/>
<xi:include href="xml/nc_hipert_adiab.xml"/>
<xi:include href="xml/nc_hipert_bg_var.xml"/>
<xi:include href="xml/nc_hipert_boltzmann_std.xml"/>
<xi:include href="xml/nc_hipert_boltzmann.xml"/>
<xi:include href="xml/nc_hipert_em.xml"/>
<xi:include href="xml/nc_hipert_first_order.xml"/>
<xi:include href="xml/nc_hipert_gw.xml"/>
<xi:include href="xml/nc_hipert_two_fluids.xml"/>
<xi:include href="xml/nc_hipert_wkb.xml"/>
<section>
<title>Gravitational theories</title>
<xi:include href="xml/nc_hipert_grav.xml"/>
<xi:include href="xml/nc_hipert_grav_einstein.xml"/>
</section>
<section>
<title>Perturbation components</title>
<xi:include href="xml/nc_hipert_comp.xml"/>
<xi:include href="xml/nc_hipert_comp_pb.xml"/>
</section>
<section>
<title>CLASS Backend</title>
<xi:include href="xml/nc_cbe_precision.xml"/>
<xi:include href="xml/nc_cbe.xml"/>
<xi:include href="xml/nc_hipert_boltzmann_cbe.xml"/>
</section>
<section>
<title>Perturbation Interfaces</title>
<xi:include href="xml/nc_hipert_itwo_fluids.xml"/>
</section>
</chapter>
<chapter>
<title>Large Scale Structure</title>
<section>
<title>Window Function</title>
<xi:include href="xml/nc_window.xml"/>
<xi:include href="xml/nc_window_tophat.xml"/>
<xi:include href="xml/nc_window_gaussian.xml"/>
</section>
<section>
<title>Transfer Function</title>
<xi:include href="xml/nc_transfer_func.xml"/>
<xi:include href="xml/nc_transfer_func_bbks.xml"/>
<xi:include href="xml/nc_transfer_func_eh.xml"/>
<xi:include href="xml/nc_transfer_func_camb.xml"/>
</section>
<xi:include href="xml/nc_growth_func.xml"/>
<section>
<title>Matter Power Spectrum</title>
<xi:include href="xml/nc_powspec_ml.xml"/>
<xi:include href="xml/nc_powspec_ml_cbe.xml"/>
<xi:include href="xml/nc_powspec_ml_spline.xml"/>
<xi:include href="xml/nc_powspec_ml_transfer.xml"/>
<xi:include href="xml/nc_powspec_mnl.xml"/>
<xi:include href="xml/nc_powspec_mnl_halofit.xml"/>
</section>
<section>
<title> Density Profile</title>
<xi:include href="xml/nc_halo_density_profile.xml"/>
<xi:include href="xml/nc_halo_density_profile_nfw.xml"/>
<xi:include href="xml/nc_halo_density_profile_einasto.xml"/>
<xi:include href="xml/nc_halo_density_profile_dk14.xml"/>
<xi:include href="xml/nc_halo_density_profile_hernquist.xml"/>
</section>
<section>
<title>Multiplicity Function</title>
<xi:include href="xml/nc_multiplicity_func.xml"/>
<xi:include href="xml/nc_multiplicity_func_ps.xml"/>
<xi:include href="xml/nc_multiplicity_func_st.xml"/>
<xi:include href="xml/nc_multiplicity_func_jenkins.xml"/>
<xi:include href="xml/nc_multiplicity_func_warren.xml"/>
<xi:include href="xml/nc_multiplicity_func_tinker.xml"/>
<xi:include href="xml/nc_multiplicity_func_tinker_mean_normalized.xml"/>
<xi:include href="xml/nc_multiplicity_func_crocce.xml"/>
<xi:include href="xml/nc_multiplicity_func_bocquet.xml"/>
<xi:include href="xml/nc_multiplicity_func_watson.xml"/>
</section>
<xi:include href="xml/nc_halo_mass_function.xml"/>
<section>
<title>Halo Bias Function Type</title>
<xi:include href="xml/nc_halo_bias.xml"/>
<xi:include href="xml/nc_halo_bias_ps.xml"/>
<xi:include href="xml/nc_halo_bias_st_spher.xml"/>
<xi:include href="xml/nc_halo_bias_st_ellip.xml"/>
<xi:include href="xml/nc_halo_bias_tinker.xml"/>
</section>
<xi:include href="xml/nc_galaxy_acf.xml"/>
<section>
<title>Cluster Redshift</title>
<xi:include href="xml/nc_cluster_redshift.xml"/>
<xi:include href="xml/nc_cluster_redshift_nodist.xml"/>
<xi:include href="xml/nc_cluster_photoz_gauss.xml"/>
<xi:include href="xml/nc_cluster_photoz_gauss_global.xml"/>
</section>
<section>
<title>Cluster Mass</title>
<xi:include href="xml/nc_cluster_mass.xml"/>
<xi:include href="xml/nc_cluster_mass_nodist.xml"/>
<xi:include href="xml/nc_cluster_mass_lnnormal.xml"/>
<xi:include href="xml/nc_cluster_mass_vanderlinde.xml"/>
<xi:include href="xml/nc_cluster_mass_benson.xml"/>
<xi:include href="xml/nc_cluster_mass_benson_xray.xml"/>
<xi:include href="xml/nc_cluster_mass_plcl.xml"/>
<xi:include href="xml/nc_cluster_mass_ascaso.xml"/>
</section>
<section>
<title>Cross-correlations</title>
<xi:include href="xml/nc_xcor.xml"/>
<xi:include href="xml/nc_xcor_AB.xml"/>
<xi:include href="xml/nc_xcor_limber_kernel.xml"/>
<xi:include href="xml/nc_xcor_limber_kernel_gal.xml"/>
<xi:include href="xml/nc_xcor_limber_kernel_CMB_lensing.xml"/>
<xi:include href="xml/nc_xcor_limber_kernel_weak_lensing.xml"/>
</section>
<xi:include href="xml/nc_cluster_abundance.xml"/>
<xi:include href="xml/nc_cluster_pseudo_counts.xml"/>
<xi:include href="xml/nc_cor_cluster_cmb_lens_limber.xml"/>
<section>
<title>Galaxy Redshift</title>
<xi:include href="xml/nc_galaxy_redshift.xml"/>
<xi:include href="xml/nc_galaxy_redshift_spec.xml"/>
<xi:include href="xml/nc_galaxy_redshift_spline.xml"/>
<xi:include href="xml/nc_galaxy_redshift_gauss.xml"/>
</section>
<section>
<title>Weak Lensing</title>
<xi:include href="xml/nc_wl_surface_mass_density.xml"/>
<xi:include href="xml/nc_reduced_shear_cluster_mass.xml"/>
<xi:include href="xml/nc_reduced_shear_calib.xml"/>
<xi:include href="xml/nc_reduced_shear_calib_wtg.xml"/>
<xi:include href="xml/nc_galaxy_wl.xml"/>
<xi:include href="xml/nc_galaxy_wl_dist.xml"/>
<xi:include href="xml/nc_galaxy_wl_ellipticity_gauss.xml"/>
<xi:include href="xml/nc_galaxy_wl_ellipticity_kde.xml"/>
<xi:include href="xml/nc_galaxy_wl_ellipticity_binned.xml"/>
<xi:include href="xml/nc_galaxy_wl_proj.xml"/>
</section>
<section>
<title>Galaxy ACF</title>
<xi:include href="xml/nc_galaxy_selfunc.xml"/>
</section>
</chapter>
<chapter>
<title>Cosmological Data</title>
<xi:include href="xml/nc_data_cmb.xml"/>
<xi:include href="xml/nc_data_cmb_shift_param.xml"/>
<xi:include href="xml/nc_data_cmb_dist_priors.xml"/>
<xi:include href="xml/nc_data_hubble.xml"/>
<xi:include href="xml/nc_data_hubble_bao.xml"/>
<xi:include href="xml/nc_data_bao.xml"/>
<xi:include href="xml/nc_data_bao_a.xml"/>
<xi:include href="xml/nc_data_bao_dv.xml"/>
<xi:include href="xml/nc_data_bao_rdv.xml"/>
<xi:include href="xml/nc_data_bao_dvdv.xml"/>
<xi:include href="xml/nc_data_bao_empirical_fit.xml"/>
<xi:include href="xml/nc_data_bao_empirical_fit_2d.xml"/>
<xi:include href="xml/nc_data_bao_dhr_dar.xml"/>
<xi:include href="xml/nc_data_bao_dtr_dhr.xml"/>
<xi:include href="xml/nc_data_bao_dmr_hr.xml"/>
<xi:include href="xml/nc_data_snia.xml"/>
<xi:include href="xml/nc_data_dist_mu.xml"/>
<xi:include href="xml/nc_data_snia_cov.xml"/>
<xi:include href="xml/nc_data_cluster_ncount.xml"/>
<xi:include href="xml/nc_data_cluster_ncounts_gauss.xml"/>
<xi:include href="xml/nc_data_cluster_pseudo_counts.xml"/>
<xi:include href="xml/nc_data_cluster_wl.xml"/>
<xi:include href="xml/nc_data_reduced_shear_cluster_mass.xml"/>
<xi:include href="xml/nc_data_planck_lkl.xml"/>
<xi:include href="xml/nc_data_xcor.xml"/>
<section>
<title>ABC analysis</title>
<xi:include href="xml/nc_abc_cluster_ncount.xml"/>
</section>
</chapter>
<chapter>
<title>Mathematical Utilities</title>
<xi:include href="xml/ncm_binsplit.xml"/>
<xi:include href="xml/ncm_function_cache.xml"/>
<xi:include href="xml/ncm_memory_pool.xml"/>
<xi:include href="xml/ncm_integrate.xml"/>
</chapter>
<chapter>
<title>Enumeration Types</title>
<xi:include href="xml/ncm_enum_types.xml"/>
<xi:include href="xml/nc_enum_types.xml"/>
</chapter>
<chapter id="object-tree">
<title>Objects Hierarchy</title>
<xi:include href="xml/tree_index.sgml"/>
<xi:include href="xml/object_index.sgml"/>
</chapter>
<index id="api-index-full-1">
<title>API Index</title>
<xi:include href="xml/api-index-full.xml"><xi:fallback /></xi:include>
</index>
<index id="api-index-deprecated-1">
<title>API Index Deprecated</title>
<xi:include href="xml/api-index-deprecated.xml"><xi:fallback /></xi:include>
</index>
<xi:include href="xml/annotation-glossary.xml"><xi:fallback /></xi:include>
</book>