|
|
Doxygen Source Code Documentation
PreProc.m File Reference
Go to the source code of this file.
|
Functions |
| | if (size(gj, 1)==1) |
| end | if (size(gj, 1)~=n) error('Factor%d must have%d elements.' |
| end | if (ischar(gj)) |
| | if (unbalanced.yes==0) |
Create index vector from a
grouping so that | gnj (gij) reproduces gj nlevels |
| levels for this factor | dfvar (j) |
| D F for this factor balanced | if (cov.do &j==cov.marker) gdum |
| | array (1Xnlevels) of one ones |
end end if(unbalanced.yes==0)
Number of | rows (1st dimension) in termlist[sterms |
| length of each | term (number of columns)%randomterm |
| variable name | tm (varnum)=0 |
combine G into term dummy
vars Construct the term name
and constraints matrix | if (ismember(varnum, NF)&cov.do) |
combine G into term dummy
vars Construct the term name
and constraints matrix for
the which is the last factor | if (ismember(varnum, cov.marker)&cov.do) |
| end | if (isempty(tn)) tn |
| | kron (eye(length(vconstr)), tconstr)] |
| and no others | if (length(oldtm) > 0) k |
| | kron (eye(size(tconstr, 2)), oconstr)] |
| | termlength (sindex(j), 1) |
| | dfterm0 (sj) |
| | dmat (:, clist) |
| | cmat (cbase+1:cbase+nC, clist) |
| | termname (clist) |
| get model without this term | dfw (1:nterms) |
sum of all the elements along
nd | dimension (row)[stermsize |
| | sindices (:)] |
| end which is voxel independent | s (length(sindices)).Qdt |
| end if | dfboth (k0)~ |
| | dfw (k) |
| | dfwo (k) |
| | dfboth (nterms+k)=0 |
| residual degrees of freedom | if (Contr.do==1) |
residual degrees of freedom
In design matrix the first
column is all one for the
total mean Then there are
totally | FL (1).N_level+FL(2).N_level+FL(3).N_level+FL(4).N_level columns for the main effects.%Next 2nd order interactions |
| the st column is for grand | mean (0 order) num_col(1)=0 |
| | for (i=1:1:NF) |
| | num_col (1) |
| | if (NF > 1) |
| | num_col (2)=0 = num_col(2) + FL(i).N_level*FL(j).N_level |
| | for (j=(i+1):1:NF) |
Columns for nd order interactions
end end end | if (NF > 2) |
Columns for nd order interactions
end end end | num_col (3)=0 = num_col(3) + FL(i).N_level*FL(j).N_level*FL(k).N_level |
| | for (k=(j+1):1:NF) |
Columns for rd order interactions
end end end end | if (NF==4) |
Columns for rd order interactions
end end end end | num_col (4) = num_col(4)*FL(i).N_level |
Columns for th order interactions
end end for every design | if (Contr.ord1.tot > 0) |
| end | if (Contr1.tot > 0) if(NF > 1 &Contr.ord2.tot > 0) |
| end | if (Contr2.tot > 0) if(NF > 2 &Contr.ord3.tot > 0) |
| end | if (Contr3.tot > 0) if(NF > 3 &Contr.ord4.tot > 0) |
Variables |
| | function [err, Qd, s, termname, nterms, sindices, dfbothSS, modw, modwo, tnames, dfterm, dfe, Contr] |
Bethesda MD Define the function
name for easy referencing | FuncName = 'PreProc.m' |
| Debug Flag | DBG = 1 |
| initailize return variables | err = 1 |
Don t worry about NaN s at
this point | group = group(:) |
| what s it for | ng = length(group) |
| number of factors | termlist = makemodel(ng, ng) |
Generate terms for all main
effects plus various interactions
for | j |
| | gj = gj(:) |
| end | n |
| end | gdum = cell(ng,1) |
| | dfvar = zeros(ng,1) |
| Balanced designs | vconstr = cell(ng,1) |
| | vmean = cell(ng,1) |
Create index vector from a
grouping | variable = grp2idx(gj) |
| D | F |
end end if(unbalanced.yes==0)
Number of | sindex = sortrows(termlist) |
| Sort terms in ascending order | ncols = 1 |
| | nconstr = 0 |
| | termdum = cell(nterms, 1) |
cell array of dummy variables
which are design matrix cols | termconstr = cell(nterms,1) |
constraints to make each term
well defined | levelcodes = cell(nterms, 1) |
| codes for levels of each M row | tnames = cell(nterms, 1) |
| name for entire | term = QRDecom(X, C) |
| name for entire e g A *B | dfterm0 = zeros(nterms, 1) |
| nominal d f for each term | termvars = cell(nterms, 1) |
| list of vars in each term | termlength = zeros(size(sindex)) |
| | tm = sterms(j,:) |
| | tdum = [] |
| empty term so far | tconstr = 1 |
| empty constraints so far | tn = '' |
| blank name so far | vars = find(tm) |
Find indices of nonzero elements
for | varidx |
| term without this variable | df0 = df0 * dfvar(varnum) |
d f so far Combine its dummy
variable with the part computed
so far | G = gdum{varnum} |
dummy vars for this grouping
var | nlevterm = size(tdum,2) |
| levels for term so far | nlevgrp = size(G,2) |
combine G into term dummy
vars Construct the term name
and constraints matrix for
the | covariate |
Kronecker end If the rest
of this term is | computed |
Kronecker end If the rest
of this term is take advantage
of that | prevterms = sterms(1:j-1,:) |
| | oldtm = find((prevterms * tm') == sum(tm)) |
| | oconstr = termconstr{k} |
| | break |
end end Store this term s
dummy variables and name | k = size(tdum, 2) |
| | sj = sindex(j) |
| Create the full design matrix | dmat = ones(n, ncols) |
| to hold design matrix of nXncols | cmat = zeros(nconstr,ncols) |
| to hold constraints matrix | cbase = 0 |
base from which to fill in
cmat | termname = zeros(ncols,1) |
| | termstart = cumsum([2; termlength(1:end-1)]) |
| | termend = termstart + termlength - 1 |
| | C = termconstr{j} |
| | nC = size(C,1) |
| | end [err, Qd, dfx, dmat2] = QRDecom(dmat, cmat) |
| | dfe = n - dfx |
Determine which models to
compare for testing each term | ssw = -ones(nterms, 1) |
| sum of squares with this term | sswo = ssw |
sum of squares without this
term | dfw = ssw |
| residual d f with this term | dfwo = ssw |
locations of model with all
terms else Only apply type
III for sums of squares | modw = ones(nterms) |
| | TnotC = termsnotcontained(termlist) |
| get model with this term | modwo = logical(modw - eye(nterms)) |
| Fit each model separately | dfboth = [dfw |
| | dfbothSS = dfboth |
For usage in ss m Consider
interactions before their
components for type | ss |
| else | termsize = sum(termlist,2)' |
sum of all the elements along
nd | sindices = sort(termsize) |
| sort in ascending | order |
sort in ascending output is
stored in | stermsize |
Look in unsorted arrays to
see if we have already fit
this model if j nterms | k0 = k+nterms |
| else | thismod = modw(k, :) |
end Get the design matrix
for this model | keepterms = find(thismod) |
| | clist = ismember(termname, [0 keepterms]) |
| | X = dmat2(:,clist) |
Use these results for each
term that requires them | mod0 = repmat(thismod, nterms, 1) |
| end clear mod0 | dfterm = dfw - dfwo |
residual degrees of freedom
In design matrix the first
column is all one | s |
residual degrees of freedom
In design matrix the first
column is all one for the
total mean Then there are
totally rd order | interaction |
residual degrees of freedom
In design matrix the first
column is all one for the
total mean Then there are
totally rd order and th order
interactions Store only those
mean columns in design matrix | num_col0 = 1 |
end Ignore st col since it
is total mean | dmat_mean = dmat(:, (num_col0 + 1):(num_col0 + num_col(1))) |
Get the number in the sum
for each | mean |
Get the number in the sum
for each which happens to
be in the diagonal of X X
This can also be otained through
the user input | variables |
Get the number in the sum
for each which happens to
be in the diagonal of X X
This can also be otained through
the user input but it is generic
with the matrix | operation |
Get the number in the sum
for each which happens to
be in the diagonal of X X
This can also be otained through
the user input but it is generic
with the matrix especially
for unbalanced design | sum_num = diag(dmat_mean' * dmat_mean) |
Columns for th order interactions
end end for every design st
order | contrasts [err, Contr] = ContrVec(1, n, NF, group, dmat, Contr, FL, num_col) |
| | return |
Function Documentation
| dfboth |
( |
nterms+ |
k |
) |
[pure virtual] |
|
| levels for this factor dfvar |
( |
j |
|
) |
|
|
| sum of all the elements along nd dimension |
( |
row |
|
) |
|
|
|
|
Referenced by allocate_arrays(), analyze_results(), calc_centroid(), calc_good_fit(), calc_partial_derivatives(), calc_reflection(), deallocate_arrays(), eval_vertices(), initialize_full_model(), initialize_program(), initialize_simplex(), output_parameters(), output_results(), qh_copypoints(), qh_detjoggle(), qh_distround(), qh_maxmin(), qh_readpoints(), replace(), restart(), simplex_optimization(), and write_bucket_data(). |
| Create index vector from a grouping so that gnj |
( |
gij |
|
) |
|
|
| end if |
( |
Contr3. |
tot, |
|
|
0 |
|
|
) |
|
|
| end if |
( |
Contr2. |
tot, |
|
|
0 |
|
|
) |
|
|
| end if |
( |
Contr1. |
tot, |
|
|
0 |
|
|
) |
|
|
| residual degrees of freedom if |
( |
Contr. |
do = = 1 |
) |
|
|
| and no others if |
( |
length(oldtm) |
, |
|
|
0 |
|
|
) |
|
|
| if |
( |
unbalanced. |
yes = = 0 |
) |
|
|
| the st column is for grand mean |
( |
0 |
order |
) |
[pure virtual] |
|
| num_col |
( |
4 |
|
) |
= num_col(4)*FL(i).N_level |
|
| num_col |
( |
3 |
|
) |
= num_col(3) + FL(i).N_level*FL(j).N_level*FL(k).N_level [pure virtual] |
|
| num_col |
( |
2 |
|
) |
= num_col(2) + FL(i).N_level*FL(j).N_level [pure virtual] |
|
|
|
Referenced by allocate2D(), array_to_matrix(), do_barray_io(), do_sarray_io(), free2D(), get_inputs(), identify_repeats(), matrix_add(), matrix_check_columns(), matrix_copy(), matrix_create(), matrix_enter(), matrix_equate(), matrix_extract(), matrix_extract_rows(), matrix_file_read(), matrix_file_write(), matrix_multiply(), matrix_norm(), matrix_print(), matrix_scale(), matrix_subtract(), matrix_transpose(), pbm_writepbminit(), pgm_writepgminit(), pm_allocarray(), pnm_backgroundxel(), pnm_promoteformat(), pnm_writepnm(), pnm_writepnminit(), ppm_computecolorhash(), ppm_computecolorhist(), ppm_writeppminit(), ppmd_filledrectangle(), ppmd_line(), ppmd_polyspline(), ppmd_spline3(), ppmd_text(), qh_backnormal(), qh_determinant(), qh_detsimplex(), qh_facetarea_simplex(), qh_gausselim(), qh_printmatrix(), qh_randommatrix(), qh_rotateinput(), qh_sethyperplane_det(), qh_sethyperplane_gauss(), SUMA_allocate2D(), SUMA_free2D(), vector_multiply(), and vector_multiply_subtract(). |
| end which is voxel independent s |
( |
length(sindices) |
|
) |
|
|
| variable name tm |
( |
varnum |
|
) |
[pure virtual] |
|
Variable Documentation
|
|
Definition at line 161 of file PreProc.m.
Referenced by add_TRUST_host(), addto_args(), addto_Htable(), adwarp_follower_dataset(), adwarp_refashion_dataset(), AFNI_3d_linefill(), AFNI_backward_warp_vector(), AFNI_brick_to_mri(), AFNI_choose_dataset_CB(), AFNI_clone_controller_CB(), AFNI_concatenate_warp(), AFNI_crosshair_EV(), AFNI_crosshair_visible_CB(), AFNI_dataset_slice(), AFNI_drive_open_plugin(), AFNI_drive_pbar_rotate(), AFNI_drive_purge_memory(), AFNI_drive_set_pbar_all(), AFNI_drive_set_pbar_sign(), AFNI_drive_switch_anatomy(), AFNI_drive_switch_function(), AFNI_drive_switch_session(), AFNI_driver(), AFNI_fimmer_compute(), AFNI_finalize_dataset_CB(), AFNI_finalize_read_1D_CB(), AFNI_finalize_read_palette_CB(), AFNI_finalize_read_sess_CB(), AFNI_finalize_write_palette_CB(), AFNI_find_jpegs(), AFNI_find_poem_files(), AFNI_find_todays_face(), AFNI_first_tog(), AFNI_follower_dataset(), AFNI_force_adoption(), AFNI_forward_warp_vector(), AFNI_func_overlay(), AFNI_get_xhair_node(), AFNI_gra_send_CB(), AFNI_hidden_EV(), AFNI_init_warp(), AFNI_initialize_controller(), AFNI_load_defaults(), AFNI_make_voxwarp(), AFNI_make_warp(), AFNI_marks_quality_check(), AFNI_marktog_CB(), AFNI_misc_CB(), AFNI_newfunc_overlay(), AFNI_parse_args(), AFNI_pbar_EV(), AFNI_plugout_workproc(), AFNI_process_environ(), AFNI_process_interrupts(), AFNI_process_plugout(), AFNI_process_setup(), AFNI_purge_dsets(), AFNI_read_inputs(), AFNI_receive_control(), AFNI_receive_init(), AFNI_refashion_dataset(), AFNI_register_nD_func_init(), AFNI_register_nD_function(), AFNI_rescan_session_NEW(), AFNI_rescan_session_OLD(), AFNI_rescan_timeseries_CB(), AFNI_seq_send_CB(), AFNI_set_cursor(), AFNI_set_func_autorange(), AFNI_set_func_visible(), AFNI_set_valabel(), AFNI_setup_viewing(), AFNI_sigfunc(), AFNI_slice_flip(), AFNI_splashdown(), AFNI_splashup(), AFNI_start_io(), AFNI_startup_layout_CB(), AFNI_ttatlas_overlay(), AFNI_underlay_CB(), AFNI_version_check(), AFNI_view_setter(), AFNI_vnlist_func_overlay(), AIVVV_imseq_send_CB(), AP_press_CB(), apply_3shear(), apply_xshear(), apply_yshear(), apply_zshear(), approximate_number_string(), AV_fval_to_char(), AV_press_CB(), B2SL_NAME(), B64_to_binary(), basis_parser(), BFIT_compute(), BFIT_prepare_dataset(), blanktrim(), brainnormalize_coord(), breakup_string(), BUCK_read_opts(), CALC_read_opts(), calculate_results(), cfft(), clip_memplot(), clustedit3D(), collapse_illegals(), collapse_xy(), conv_model(), copy_memplot(), CORREL_main(), CREN_dset_axes(), CREN_render(), DBLE_mat_to_dicomm(), DC_add_overlay_color(), decode_dimen_string(), decode_linebuf(), decode_type_field(), delete_memplot(), DLSQ_rotscl(), do_xrestore_stuff(), DRAW_collapsar(), DRAW_fillin_CB(), DRAW_finalize_dset_CB(), DRAW_into_dataset(), DRAW_label_EV(), DRAW_receiver(), DRAW_ttatlas_CB(), draw_xseg(), drive_MCW_grapher(), drive_MCW_imseq(), dset_to_mri(), EDIT_blur_volume_3d(), EDIT_coerce_scale_type(), EDIT_coerce_type(), EDIT_dset_items(), EDIT_filter_volume(), EDIT_main(), EDIT_one_dataset(), EDIT_opts(), EDIT_volpad(), EDIT_zscore_vol(), EDT_calcmask(), ENV_init(), ENV_main(), extract_byte_fs(), extract_byte_ts(), extract_byte_tsx(), F1D_chainfunc(), F1D_main(), F2D_chainfunc(), F2D_main(), FD_brick_to_mri(), FD_brick_to_series(), fft_3dec(), fft_4dec(), fft_5dec(), FFT_selection(), fim3d_fimmer_compute(), FIM_selection(), find_base_value(), find_empty_slot(), find_unusual_correlations(), flip(), flip90(), flip_memplot(), get_header_attribute(), get_siemens_extra_info(), get_X11_colordef(), GRA_color_CB(), GRA_drawing_EV(), GRA_fim_CB(), GRA_handle_keypress(), GRA_overlay_circle(), GRA_saver_CB(), GRA_setshift_action_CB(), GRA_small_circle(), GRA_thick_CB(), GRA_timer_CB(), GRAF_changed(), GRAF_drawing_EV(), GRAF_pasdrawing_EV(), GRAPH_find_components(), HandleEvent(), hasher(), HISTO_main(), IMREG_main(), input_CB(), INTERP_setup_linear(), iochan_ctl(), iochan_fork_relay(), iochan_goodcheck(), iochan_init(), iochan_recvloop(), ISQ_arrowpad_CB(), ISQ_butsave_EV(), ISQ_button2_EV(), ISQ_disp_act_CB(), ISQ_disp_options(), ISQ_draw_winfo(), ISQ_drawing_EV(), ISQ_flipxy(), ISQ_handle_keypress(), ISQ_montage_action_CB(), ISQ_overlay(), ISQ_perpoints(), ISQ_plot_label(), ISQ_process_mri(), ISQ_record_send_CB(), ISQ_redisplay(), ISQ_remove_widget(), ISQ_saver_CB(), ISQ_set_cursor_state(), ISQ_snapfile(), ISQ_statistics_WP(), ISQ_surfgraph_arrowpad_CB(), ISQ_timer_CB(), ISQ_unflipxy(), kill_graph_xy(), L1F_main(), LMAP_XNAME(), LMAP_YNAME(), LMAP_ZNAME(), Load_Any_RGB(), Load_Next_RGB(), LSQ_main(), main(), main_FD_EPI(), MAIN_workprocess(), Make_RGB_lookup(), make_shear_matrix(), MAKER_4D_to_typed_fbuc(), MAKER_4D_to_typed_fim(), MAKER_4D_to_typed_fith(), mangle_angle(), MASKAVE_main(), Max_func(), MCW_check_iconsize(), MCW_choose_string(), MCW_fc7(), MCW_find_clusters(), MCW_get_intlist(), mcw_malloc_dump(), MCW_new_DC(), MCW_popup_message(), MCW_popup_meter(), MCW_scale_to_max(), MCW_stradd_CB(), MCW_vol_amax(), memplot_to_postscript(), memplot_to_RGB_sef(), memplot_to_X11_sef(), merge_cohar(), mri_3to_rgb(), mri_brainormalize(), mri_cat2D(), mri_data_pointer(), mri_dup2D(), mri_dup2D_mode(), mri_fix_data_pointer(), mri_flippo(), mri_histogram(), mri_imcount(), mri_imcount_analyze75(), mri_imcount_dicom(), mri_imcount_siemens(), mri_invert_inplace(), mri_medianfilter(), mri_min(), mri_mult_to_float(), mri_multiply_complex(), mri_new_7D_generic(), mri_nsize(), mri_percents(), mri_quantile(), mri_read(), mri_read3D_analyze75(), mri_read_3A(), mri_read_3D(), mri_read_3D_delay(), mri_read_analyze75(), mri_read_ascii(), mri_read_ascii_ragged(), mri_read_dicom(), mri_read_mpeg(), mri_read_siemens(), mri_rgb_transform_nD(), mri_rgba_composite_array(), mri_rgba_composite_VA(), mri_scale_inplace(), mri_scale_to_float(), mri_shift_1D(), mri_to_byte(), mri_to_byte_scl(), mri_to_complex(), mri_to_complex_ext(), mri_to_float(), mri_to_mri(), mri_to_mri_scl(), mri_to_rgb(), mri_to_rgba(), mri_to_short(), mri_to_short_sclip(), mri_to_XImage(), mri_try_7D(), mri_warp3d_align_one(), mri_warp3D_cubic(), mri_warp3D_get_delta(), mri_warp3D_linear(), mri_warp3D_NN(), mri_warp3D_quintic(), mri_warp_bicubic(), mri_write(), mri_write_7D(), mri_write_ascii(), mri_write_pnm(), mri_zeropad_2D(), multivector_read(), multivector_write(), MV_fval_to_char(), my_fgets(), new_MCW_arrowval(), new_MCW_bbox(), new_MCW_grapher(), new_PLUGOUT_spec(), new_RT_input(), NI_base64_to_val(), NI_binary_to_val(), NI_convert_elm_to_obj(), NI_copy_struct(), NI_decode_one_double(), NI_decode_string_list(), NI_free_struct(), NI_fval_to_char(), NI_get_attribute(), NI_malloc_dump(), NI_read_columns(), NI_read_element(), NI_register_doer(), NI_register_objconverters(), NI_remove_from_group(), NI_rowtype_find_name(), NI_set_attribute(), NI_set_vector_range(), NI_stat_decode(), NI_stat_encode(), NI_stream_close_keep(), NI_stream_fillbuf(), NI_stream_goodcheck(), NI_stream_open(), NI_stream_readbuf(), NI_text_to_val(), NI_val_to_text(), NI_write_columns(), NI_write_element(), NIH_find_clusters(), NL_main(), NLFIT_get_many_MODELs(), NOTES_delete_CB(), NOTES_restore_CB(), outer9_box_func(), parse_header_stuff(), PARSER_1deval(), parset_affine(), PBAR_add_bigmap(), PBAR_button_EV(), PBAR_click_CB(), PBAR_define_bigmap(), PBAR_make_bigmap(), PBAR_set_bigmap(), PBAR_set_CB(), PCOR_get_mcor(), PCOR_UPDATE(), PH_fakeim(), pixar_to_XImage(), plot_graphs(), plot_line(), PLOT_scatterellipse(), plot_ts_init(), plot_ts_mem(), PLUG_choose_dataset_CB(), PLUG_fillin_values(), PLUG_get_many_plugins(), PLUG_nonblank_len(), PLUG_read_plugin(), PLUG_setup_widgets(), PLUGIN_init(), PLUGIN_seq_send_CB(), PLUTO_4D_to_nothing(), PLUTO_commandstring(), PLUTO_imseq_send_CB(), PLUTO_scatterplot(), populate_nifti_image(), POWER_main(), PR_one_slice(), probe_track(), proc_sigfunc(), process_NIML_Node_ROI(), process_NIML_SUMA_ijk(), process_NIML_SUMA_ixyz(), process_NIML_SUMA_node_normals(), process_sample(), putin_fop_table(), qmed_float(), qsrec_double(), qsrec_doubleint(), qsrec_float(), qsrec_floatfloat(), qsrec_floatint(), qsrec_floatstuff(), qsrec_int(), qsrec_intint(), QSREC_NAME(), qsrec_pair(), qsrec_sh(), qsrec_short(), quadrant_fimfunc(), quotize_string(), r_mri_read_dicom(), random_search(), RCREND_accum_lab_EV(), RCREND_autocompute_CB(), RCREND_choose_CB(), RCREND_clusters_av_CB(), RCREND_cutout_blobs(), RCREND_cutout_set_CB(), RCREND_cutout_state_changed(), RCREND_cutout_type_CB(), RCREND_kill_clusters_CB(), RCREND_open_imseq(), RCREND_overlay_ttatlas(), RCREND_pbarmenu_EV(), RCREND_read_exec_CB(), RCREND_reload_dataset(), RCREND_reload_func_dset(), RCREND_seq_send_CB(), RCREND_state_to_widgets(), RCREND_update_imseq(), RCREND_xhair_EV(), read_ascii_floats(), read_glt_matrix(), read_input_data(), read_URL_http(), redraw_graph(), redraw_MCW_pasgraf(), REG_command_line(), reload_DC_colordef(), remove_open_stream(), REND_autocompute_CB(), REND_choose_CB(), REND_clusters_av_CB(), REND_cutout_blobs(), REND_cutout_set_CB(), REND_cutout_state_changed(), REND_cutout_type_CB(), REND_kill_clusters_CB(), REND_open_imseq(), REND_overlay_ttatlas(), REND_pbarmenu_EV(), REND_read_exec_CB(), REND_reload_dataset(), REND_reload_func_dset(), REND_reload_renderer(), REND_seq_send_CB(), REND_state_to_widgets(), REND_update_imseq(), REND_xhair_EV(), resize_XImage(), rot_to_shear(), rot_to_shear_matvec(), rotate_stdin_points(), RT_fim_recurse(), RT_finish_dataset(), RT_number_array(), RT_process_image(), RT_process_info(), RT_registration_2D_onevol(), RT_registration_3D_onevol(), RT_registration_3D_setup(), RT_sigfunc(), RT_start_dataset(), RT_tell_afni_one(), RT_worker(), RWC_drag_circle(), RWC_drag_rectangle(), RWC_read_time_series(), RWC_setup_fims(), RWC_xineramize(), SCAT_main(), SER_addto_vector_textmode(), SER_new_vector(), SFIM_load_intervals(), SHIFT_set_method(), shiftdeltas(), shiftvec(), SHM_goodcheck(), SHM_init(), SHM_readcheck(), SHM_recv(), SHM_send(), SHM_writecheck(), SNAP_imseq_send_CB(), SNGL_mat_to_dicomm(), spearman_fimfunc(), SPLASH_decodexx(), STATS_tsfunc(), STAVG_main(), STD_colors(), SUMA_AFNI_forward_warp_xyz(), SUMA_FindNgrAttributeElement(), SUMA_flip_orient(), SUMA_FormAfnidset(), SUMA_ixyzsort_surface(), SUMA_NI_decode_string_list(), SUMA_NI_get_ith_string(), SUMA_nimlSO2SO(), SUMA_orcode_to_orstring(), SUMA_sigfunc(), SUMA_THD_3dmm_to_dicomm(), SUMA_THD_dicomm_to_3dmm(), SUMA_THD_handedness(), SUMA_VolDims(), SYM_expand_ranges(), T3D_check_data(), T3D_data_to_widgets(), T3D_imseq_CB(), T3D_initialize_user_data(), T3D_read_images(), T3D_save_file_CB(), T3D_swap_CB(), T3D_voxshape_CB(), T3D_widgets_to_data(), TAG_read_CB(), TCAT_read_opts(), text_graphs(), TFIM_getopts(), THD_3dim_from_block(), THD_3dmm_to_dicomm(), THD_add_bricks(), THD_cliplevel(), THD_copy_file(), THD_datablock_apply_atr(), THD_datablock_from_atr(), THD_dataset_info(), THD_dataset_rowfillin(), THD_dataset_tshift(), THD_dataset_zfillin(), THD_dblkatr_from_niml(), THD_delete_datablock(), THD_dicomm_to_3dmm(), THD_dset_in_session(), THD_erase_all_atr(), THD_erase_one_atr(), THD_extract_array(), THD_extract_float_brick(), THD_extract_many_series(), THD_fetch_dataset(), THD_fetch_many_datasets(), THD_find_atr(), THD_generic_detrend(), THD_get_brick_stats(), THD_get_dset_row(), THD_get_many_timeseries(), THD_get_voxel(), THD_getpathprogs(), THD_handedness(), THD_init_prefix_datablocks(), THD_init_session(), THD_insert_series(), THD_load_3D(), THD_load_analyze(), THD_load_ctfmri(), THD_load_datablock(), THD_load_minc(), THD_load_nifti(), THD_makemask(), THD_mask_clust(), THD_mask_fillin_once(), THD_matrix_to_orientation(), THD_nimlize_dsetatr(), THD_open_3D(), THD_open_3dcalc(), THD_open_analyze(), THD_open_ctfmri(), THD_open_ctfsam(), THD_open_minc(), THD_open_mpeg(), THD_open_nifti(), THD_open_one_dataset(), THD_open_tcat(), THD_order_session(), THD_orient_guess(), THD_oriented_brick(), THD_peel_mask(), THD_put_dset_row(), THD_pval_to_stat(), THD_read_all_atr(), THD_read_dvecmat(), THD_read_niml_atr(), THD_rota_method(), THD_rotcom_to_matvec(), THD_set_atr(), THD_set_dataset_attributes(), THD_setup_bricks(), THD_stat_to_pval(), THD_stat_to_zscore(), THD_trailname(), THD_write_1D(), THD_write_atr(), THD_write_datablock(), THD_write_minc(), THD_zeropad(), trailname(), tross_breakup_string(), tross_Encode_String(), tross_multi_Append_History(), TSGEN_main(), TT_load_atlas(), TT_read_opts(), TT_whereami(), TTget_recv(), TTget_URL(), TTRR_load_file(), unusuality(), update_voxel_corr(), upsample_1(), upsample_7(), VOLREG_main(), window_plane(), WINsorize(), XImage_to_mri(), XSAVE_input(), and zedit_mask(). |
| denominator dfe = n - dfx |
|
| denominator dfterm = dfw - dfwo |
|
| name for entire e g A* B dfterm0 = zeros(nterms, 1) |
|
|
|
Initial value:
Definition at line 86 of file PreProc.m. |
| Bethesda MD Define the function name for easy referencing FuncName = 'PreProc.m' |
|
| function[err, Qd, s, termname, nterms, sindices, dfbothSS, modw, modwo, tnames, dfterm, dfe, Contr] |
|
|
|
Initial value: PreProc(n, NF, group, varnames, FL, Contr, cov, unbalanced)
%
% [err, Qd, Rd, sindices, dfboth, modw, modwo, dfx] = PreProc(n,group,varnames)
%
%Purpose:
%
% Returns QR decomposition results for the design matrix projected to null space
%
%Input Parameters:
% n: number of datasets = total # of combinations including repeats
% group: cell array of factor levels
% varnames:
%
%Output Parameters:
% err : 0 No Problem
% : 1 Problems
%
%
%
%Key Terms:
%
%More Info :
%
%
%
%
% Author : Gang Chen
% Date : Tue Mar 23 13:57:52 EST 2004
% SSCC/NIMH/ NIH
Definition at line 1 of file PreProc.m. |
| Don t worry about NaN s at this point group = group(:) |
|
|
|
Definition at line 42 of file PreProc.m.
Referenced by bandv_(), checkAttributeOrder(), DCM_CloseObject(), DCM_ElementDictionary(), DCM_GetElementSize(), DCM_GroupDictionary(), DCM_GroupPresent(), DCM_RemoveElement(), DCM_RemoveGroup(), exportFixedFields(), findCreateGroup(), handleGroupItem(), readFile(), readGroupElement(), SUMA_AdoptGroup(), SUMA_SwitchGroups(), SUMA_writeSpecFile(), tinvit_(), and tsturm_(). |
| levels for term so far nlevgrp = size(G,2) |
|
| For usage in ss m Consider interactions before their components for type ss |
|
|
|
Definition at line 228 of file PreProc.m.
Referenced by AFNI_andersonville(), AFNI_finalize_read_Web_CB(), AFNI_force_adoption(), AFNI_make_descendants_old(), AFNI_mark_for_death(), AFNI_marks_transform_CB(), AFNI_plugin_button(), AFNI_process_plugout(), AFNI_rescan_timeseries_CB(), AFNI_serverlog(), AFNI_vnlist_func_overlay(), AFNI_vol2surf_func_overlay(), AFNI_write_many_dataset_CB(), binomial_t2p(), binomial_t2z(), calculate_ss(), check_string(), corr_floatbit(), count_bitvector(), DRAW_choose_CB(), DRAW_undo_sizecheck(), dumpSS(), expand_rle(), fft_5dec(), init_AREN_colortable(), init_MREN_colortable(), ISQ_plot_label(), ISQ_show_image(), main(), mcw_malloc_dump(), MCW_sort_cluster(), mri_short_order(), NI_byteorder(), NI_decode_string_list(), NI_malloc_dump(), NI_rowtype_vsize(), NOTES_choose_CB(), NUD_choose_CB(), parse_header_stuff(), parset_affine(), PLUG_choose_dataset_CB(), PLUG_setup_widgets(), PLUTO_popup_dset_chooser(), pr_att_vals(), PR_one_slice(), process_NIML_AFNI_dataset(), PV2S_check_surfaces(), PV2S_disp_afni_surfaces(), PV2S_process_args(), quadrant_corr(), quadrant_manycorr(), RCREND_axis_rotmatrix(), RCREND_load_dsl(), read_glt_matrix(), read_input_data(), RENAME_main(), REND_load_dsl(), RWC_set_endianosity(), RWC_xineramize(), SER_addto_vector_textmode(), slist_surfs_for_ldp(), sortIt(), spearman_rank_corr(), spearman_rank_manycorr(), sphere_voronoi_vectors(), SPLASH_imseq_getim(), SUMA_NI_decode_string_list(), SUMA_NI_get_ith_string(), surf_ave_radius(), SYM_expand_ranges(), tztrim(), unusuality(), and UTL_ConvertTimetoFloat(). |
| Determine which models to compare for testing each term ssw = -ones(nterms, 1) |
|
| levels for this grouping var tdum = [] |
|
| Fit this term = QRDecom(X, C) |
|
| blank name so far vars = find(tm) |
|
|
