Index

A

a (sarpy.BRUKERIO.descriptortest.C attribute) acqp (sarpy.BRUKERIO.BRUKER_classes.Scan attribute) AData (class in sarpy.BRUKERIO.AData_classes) adata (sarpy.BRUKERIO.BRUKER_classes.Scan attribute) (sarpy.BRUKERIO.descriptortest.tryout attribute) adata2df() (in module sarpy.helpers) ADataDict (class in sarpy.BRUKERIO.AData_classes)

add_study() (sarpy.BRUKERIO.BRUKER_classes.StudyCollection method) AIC_from_SSE() (in module sarpy.PKanalysis.PKfitlib) aif() (in module sarpy.PKanalysis.PKfitlib) AIF_factory() (in module sarpy.PKanalysis.PKfitlib) AIF_model() (in module sarpy.PKanalysis.PKfitlib) arr_comp() (in module sarpy.BRUKERIO.JCAMP_comparison) atleast_4d() (in module sarpy.ImageProcessing.resample_onto) AttrDict (class in sarpy.BRUKERIO.BRUKER_classes)

B

bounds_penalty() (in module sarpy.PKanalysis.PKfitlib)

C

C (class in sarpy.BRUKERIO.descriptortest) Cnew (class in sarpy.BRUKERIO.descriptortest) conc_2CXM() (in module sarpy.PKanalysis.PKfitlib) conc_Tofts() (in module sarpy.PKanalysis.PKfitlib)

conc_XTofts() (in module sarpy.PKanalysis.PKfitlib) congrid() (in module sarpy.BRUKERIO.congrid) convert_int_float_string() (in module sarpy.BRUKERIO.lowlevel) create_model_AIF() (in module sarpy.PKanalysis.PKfitlib)

D

D (class in sarpy.BRUKERIO.descriptortest) d3proc (sarpy.BRUKERIO.BRUKER_classes.PDATA_file attribute) data (sarpy.BRUKERIO.AData_classes.AData attribute) (sarpy.BRUKERIO.BRUKER_classes.PDATA_file attribute) (sarpy.BRUKERIO.descriptortest.Cnew attribute)

df_from_masterlist() (in module sarpy.analysis.gather_data) dict2string() (in module sarpy.BRUKERIO.lowlevel) dict_plus (class in sarpy.BRUKERIO.descriptortest) dimcomment (sarpy.BRUKERIO.BRUKER_classes.PDATA_file attribute) dimdesc (sarpy.BRUKERIO.BRUKER_classes.PDATA_file attribute) Dnew (class in sarpy.BRUKERIO.descriptortest)

E

Experiment (class in sarpy.BRUKERIO.BRUKER_classes)

export2nii() (sarpy.BRUKERIO.AData_classes.AData method) (sarpy.BRUKERIO.BRUKER_classes.PDATA_file method)

F

fftbruker() (in module sarpy.BRUKERIO.lowlevel) fftfid (sarpy.BRUKERIO.BRUKER_classes.Scan attribute) fftfid() (in module sarpy.BRUKERIO.lowlevel) fid (sarpy.BRUKERIO.BRUKER_classes.Scan attribute) find_adata_scans() (sarpy.BRUKERIO.BRUKER_classes.Study method) (sarpy.BRUKERIO.BRUKER_classes.StudyCollection method) find_all_patients_in_masterlists() (in module sarpy.BRUKERIO.BRUKER_classes) find_o2_inj_point() (in module sarpy.helpers) find_scan_by_protocol() (sarpy.BRUKERIO.BRUKER_classes.Study method) (sarpy.BRUKERIO.BRUKER_classes.StudyCollection method) find_studies() (sarpy.BRUKERIO.BRUKER_classes.Experiment method)

fit_2CXM() (in module sarpy.PKanalysis.PKfitlib) fit_double_2CXM() (in module sarpy.PKanalysis.PKfitlib) fit_generic() (in module sarpy.PKanalysis.PKfitlib) fit_generic_array() (in module sarpy.PKanalysis.PKfitlib) fit_scn() (in module sarpy.PKanalysis.PKfitlib) flatten_list() (in module sarpy.helpers) foo() (in module test.logtest_module) from_filter() (sarpy.BRUKERIO.BRUKER_classes.Experiment class method) from_masterlist() (sarpy.BRUKERIO.BRUKER_classes.Experiment class method) fromdata() (sarpy.BRUKERIO.AData_classes.AData class method) fromfile() (sarpy.BRUKERIO.AData_classes.AData class method)

G

generate() (in module sarpy.analysis.histoBoard) generate_summary() (in module sarpy.generate_summary) get_histogram() (in module sarpy.analysis.get_histogram)

get_SUBJECT_id() (sarpy.BRUKERIO.BRUKER_classes.StudyCollection method) getCumData() (in module sarpy.analysis.special_finder) getname() (sarpy.BRUKERIO.descriptortest.tryout method) git_repo_state() (in module sarpy.helpers)

H

heaviside() (in module sarpy.PKanalysis.PKfitlib)

hierarchical_fit_2CXM() (in module sarpy.PKanalysis.PKfitlib)

I

inner_value() (in module sarpy.BRUKERIO.lowlevel)

int_comp() (in module sarpy.BRUKERIO.JCAMP_comparison) iteritems() (sarpy.BRUKERIO.BRUKER_classes.AttrDict method)

J

JCAMP_file (class in sarpy.BRUKERIO.BRUKER_classes)

K

keys() (sarpy.BRUKERIO.BRUKER_classes.AttrDict method)

L

last_path_components() (in module sarpy.BRUKERIO.BRUKER_classes) lazy_property (class in sarpy.BRUKERIO.lazy_property)

lazy_property_desc (class in sarpy.BRUKERIO.descriptortest) list_param_by_type() (in module sarpy.BRUKERIO.JCAMP_comparison) load_AData() (in module sarpy.BRUKERIO.AData_classes)

M

masterlist_attr() (sarpy.BRUKERIO.BRUKER_classes.Scan method) masterlist_df (sarpy.BRUKERIO.BRUKER_classes.Experiment attribute) masterlist_filename (sarpy.BRUKERIO.BRUKER_classes.Experiment attribute) (sarpy.BRUKERIO.BRUKER_classes.Study attribute) method (sarpy.BRUKERIO.BRUKER_classes.Scan attribute) mkdir_p() (in module sarpy.BRUKERIO.AData_classes) module sarpy sarpy.analysis sarpy.analysis.gather_data sarpy.analysis.get_histogram sarpy.analysis.histoBoard sarpy.analysis.special_finder sarpy.andrewcyung sarpy.BRUKERIO sarpy.BRUKERIO.AData_classes sarpy.BRUKERIO.BRUKER_classes sarpy.BRUKERIO.check_fid_acqp_method sarpy.BRUKERIO.congrid sarpy.BRUKERIO.descriptortest sarpy.BRUKERIO.JCAMP_comparison sarpy.BRUKERIO.lazy_property sarpy.BRUKERIO.lowlevel sarpy.BRUKERIO.obj2dict sarpy.BRUKERIO.oldtest_lowlevel sarpy.BRUKERIO.visu_pars_2_Nifti1Header sarpy.BRUKERIO.write_parameter_stack sarpy.DCE sarpy.fmoosvi sarpy.fmoosvi.test_suite sarpy.generate_summary sarpy.helpers sarpy.ImageProcessing sarpy.ImageProcessing.resample_onto sarpy.PKanalysis sarpy.PKanalysis.PKfitlib setup test test.logtest_module

N

name (sarpy.BRUKERIO.descriptortest.tryout property)

natural_sort() (in module sarpy.helpers)

O

obj2dict() (in module sarpy.BRUKERIO.obj2dict)

P

pairwise() (in module sarpy.BRUKERIO.lowlevel) paramconv_modeltosoln() (in module sarpy.PKanalysis.PKfitlib) paramconv_solntomodel() (in module sarpy.PKanalysis.PKfitlib)

Patient (class in sarpy.BRUKERIO.BRUKER_classes) pdata (sarpy.BRUKERIO.BRUKER_classes.Scan attribute) PDATA_file (class in sarpy.BRUKERIO.BRUKER_classes) pdata_uids (sarpy.BRUKERIO.BRUKER_classes.Scan attribute)

R

read2dseq() (in module sarpy.BRUKERIO.lowlevel) readfid() (in module sarpy.BRUKERIO.lowlevel) readfidspectro() (in module sarpy.BRUKERIO.lowlevel) readJCAMP() (in module sarpy.BRUKERIO.lowlevel) readRFshape() (in module sarpy.BRUKERIO.lowlevel) reco (sarpy.BRUKERIO.BRUKER_classes.PDATA_file attribute) regex_comp() (in module sarpy.BRUKERIO.JCAMP_comparison) rel_prob_from_AIC() (in module sarpy.PKanalysis.PKfitlib)

replace_nan_with() (in module sarpy.helpers) resample_onto() (in module sarpy.ImageProcessing.resample_onto) resample_onto_pdata() (in module sarpy.ImageProcessing.resample_onto) residual_2CXM() (in module sarpy.PKanalysis.PKfitlib) residual_Tofts() (in module sarpy.PKanalysis.PKfitlib) rm_adata() (sarpy.BRUKERIO.BRUKER_classes.Scan method) (sarpy.BRUKERIO.BRUKER_classes.Study method) (sarpy.BRUKERIO.BRUKER_classes.StudyCollection method)

S

sarpy module sarpy.analysis module sarpy.analysis.gather_data module sarpy.analysis.get_histogram module sarpy.analysis.histoBoard module sarpy.analysis.special_finder module sarpy.andrewcyung module sarpy.BRUKERIO module sarpy.BRUKERIO.AData_classes module sarpy.BRUKERIO.BRUKER_classes module sarpy.BRUKERIO.check_fid_acqp_method module sarpy.BRUKERIO.congrid module sarpy.BRUKERIO.descriptortest module sarpy.BRUKERIO.JCAMP_comparison module sarpy.BRUKERIO.lazy_property module sarpy.BRUKERIO.lowlevel module sarpy.BRUKERIO.obj2dict module sarpy.BRUKERIO.oldtest_lowlevel module sarpy.BRUKERIO.visu_pars_2_Nifti1Header module sarpy.BRUKERIO.write_parameter_stack module

sarpy.DCE module sarpy.fmoosvi module sarpy.fmoosvi.test_suite module sarpy.generate_summary module sarpy.helpers module sarpy.ImageProcessing module sarpy.ImageProcessing.resample_onto module sarpy.PKanalysis module sarpy.PKanalysis.PKfitlib module Scan (class in sarpy.BRUKERIO.BRUKER_classes) scan_finder() (sarpy.BRUKERIO.BRUKER_classes.Study method) (sarpy.BRUKERIO.BRUKER_classes.StudyCollection method) scans (sarpy.BRUKERIO.BRUKER_classes.Study attribute) setname() (sarpy.BRUKERIO.descriptortest.tryout method) setup module shellquote() (in module sarpy.helpers) show_tree() (in module sarpy.BRUKERIO.obj2dict) silentremove() (in module sarpy.BRUKERIO.AData_classes) smooth_SG() (in module sarpy.helpers) special_finder() (in module sarpy.analysis.special_finder) store_adata() (sarpy.BRUKERIO.BRUKER_classes.PDATA_file method) (sarpy.BRUKERIO.BRUKER_classes.Scan method) stresstest_read2dseq() (in module sarpy.BRUKERIO.oldtest_lowlevel) stresstest_readfid() (in module sarpy.BRUKERIO.oldtest_lowlevel) stresstest_readJCAMP() (in module sarpy.BRUKERIO.oldtest_lowlevel) strip_all_but_classname() (in module sarpy.BRUKERIO.BRUKER_classes) Study (class in sarpy.BRUKERIO.BRUKER_classes) study_masterlist_df (sarpy.BRUKERIO.BRUKER_classes.Experiment attribute) StudyCollection (class in sarpy.BRUKERIO.BRUKER_classes)

T

test module Test (class in sarpy.BRUKERIO.oldtest_lowlevel) test.logtest_module module

test_doctests() (sarpy.BRUKERIO.oldtest_lowlevel.Test method) test_read2dseq() (sarpy.BRUKERIO.oldtest_lowlevel.Test method) test_readfid() (sarpy.BRUKERIO.oldtest_lowlevel.Test method) test_readJCAMP() (sarpy.BRUKERIO.oldtest_lowlevel.Test method) tryout (class in sarpy.BRUKERIO.descriptortest) TwoCXM_factory() (in module sarpy.PKanalysis.PKfitlib)

U

uid() (sarpy.BRUKERIO.BRUKER_classes.PDATA_file method)

V

values() (sarpy.BRUKERIO.BRUKER_classes.AttrDict method) visu_pars (sarpy.BRUKERIO.AData_classes.AData attribute) (sarpy.BRUKERIO.BRUKER_classes.PDATA_file attribute)

visu_pars_2_matrix_size() (in module sarpy.BRUKERIO.visu_pars_2_Nifti1Header) visu_pars_2_Nifti1Header() (in module sarpy.BRUKERIO.visu_pars_2_Nifti1Header)

W

write_parameter_stack() (in module sarpy.BRUKERIO.write_parameter_stack)

X

xscan_finder() (sarpy.BRUKERIO.BRUKER_classes.Study method) (sarpy.BRUKERIO.BRUKER_classes.StudyCollection method)