fmriprep
23.1.4
Installation
Usage Notes
Processing pipeline details
Outputs of
fMRIPrep
Defining standard and nonstandard spaces where data will be resampled
FAQ - Frequently Asked Questions
Developers - API
What’s new
fmriprep
Index
Edit on GitHub
Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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L
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M
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N
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O
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P
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R
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S
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T
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U
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V
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W
A
anat_derivatives (fmriprep.config.execution attribute)
anat_only (fmriprep.config.workflow attribute)
aroma_err_on_warn (fmriprep.config.workflow attribute)
aroma_melodic_dim (fmriprep.config.workflow attribute)
B
bids_database_dir (fmriprep.config.execution attribute)
bids_description_hash (fmriprep.config.execution attribute)
bids_dir (fmriprep.config.execution attribute)
bids_filters (fmriprep.config.execution attribute)
boilerplate_only (fmriprep.config.execution attribute)
bold2t1w_dof (fmriprep.config.workflow attribute)
bold2t1w_init (fmriprep.config.workflow attribute)
C
cifti_output (fmriprep.config.workflow attribute)
cli (fmriprep.config.loggers attribute)
country_code (fmriprep.config.execution attribute)
cpu_count (fmriprep.config.environment attribute)
crashfile_format (fmriprep.config.nipype attribute)
D
debug (fmriprep.config.execution attribute)
default (fmriprep.config.loggers attribute)
dummy_scans (fmriprep.config.workflow attribute)
dumps() (in module fmriprep.config)
E
echo_idx (fmriprep.config.execution attribute)
environment (class in fmriprep.config)
exec_docker_version (fmriprep.config.environment attribute)
exec_env (fmriprep.config.environment attribute)
execution (class in fmriprep.config)
F
fmap_bspline (fmriprep.config.workflow attribute)
fmap_demean (fmriprep.config.workflow attribute)
fmriprep.config
module
fmriprep.workflows.base
module
fmriprep.workflows.bold
module
fmriprep.workflows.bold.base
module
fmriprep.workflows.bold.confounds
module
fmriprep.workflows.bold.hmc
module
fmriprep.workflows.bold.registration
module
fmriprep.workflows.bold.resampling
module
fmriprep.workflows.bold.stc
module
fmriprep.workflows.bold.t2s
module
fmriprep_dir (fmriprep.config.execution attribute)
force_syn (fmriprep.config.workflow attribute)
free_mem (fmriprep.config.environment attribute)
from_dict() (in module fmriprep.config)
fs_license_file (fmriprep.config.execution attribute)
fs_subjects_dir (fmriprep.config.execution attribute)
G
get() (in module fmriprep.config)
get_linked_libs (fmriprep.config.nipype attribute)
get_plugin() (fmriprep.config.nipype class method)
H
hires (fmriprep.config.workflow attribute)
I
ignore (fmriprep.config.workflow attribute)
init() (fmriprep.config.execution class method)
(fmriprep.config.loggers class method)
(fmriprep.config.nipype class method)
init_bbreg_wf() (in module fmriprep.workflows.bold.registration)
init_bold_confs_wf() (in module fmriprep.workflows.bold.confounds)
init_bold_fsLR_resampling_wf() (in module fmriprep.workflows.bold.resampling)
init_bold_grayords_wf() (in module fmriprep.workflows.bold.resampling)
init_bold_hmc_wf() (in module fmriprep.workflows.bold.hmc)
init_bold_preproc_trans_wf() (in module fmriprep.workflows.bold.resampling)
init_bold_reg_wf() (in module fmriprep.workflows.bold.registration)
init_bold_stc_wf() (in module fmriprep.workflows.bold.stc)
init_bold_std_trans_wf() (in module fmriprep.workflows.bold.resampling)
init_bold_surf_wf() (in module fmriprep.workflows.bold.resampling)
init_bold_t1_trans_wf() (in module fmriprep.workflows.bold.registration)
init_bold_t2s_wf() (in module fmriprep.workflows.bold.t2s)
init_fmriprep_wf() (in module fmriprep.workflows.base)
init_fsl_bbr_wf() (in module fmriprep.workflows.bold.registration)
init_func_derivatives_wf() (in module fmriprep.workflows.bold.base)
init_func_preproc_wf() (in module fmriprep.workflows.bold.base)
init_goodvoxels_bold_mask_wf() (in module fmriprep.workflows.bold.resampling)
init_single_subject_wf() (in module fmriprep.workflows.base)
init_spaces() (in module fmriprep.config)
interface (fmriprep.config.loggers attribute)
L
layout (fmriprep.config.execution attribute)
load() (in module fmriprep.config)
log_dir (fmriprep.config.execution attribute)
log_level (fmriprep.config.execution attribute)
loggers (class in fmriprep.config)
longitudinal (fmriprep.config.workflow attribute)
low_mem (fmriprep.config.execution attribute)
M
md_only_boilerplate (fmriprep.config.execution attribute)
me_output_echos (fmriprep.config.execution attribute)
me_t2s_fit_method (fmriprep.config.workflow attribute)
medial_surface_nan (fmriprep.config.workflow attribute)
memory_gb (fmriprep.config.nipype attribute)
module
fmriprep.config
fmriprep.workflows.base
fmriprep.workflows.bold
fmriprep.workflows.bold.base
fmriprep.workflows.bold.confounds
fmriprep.workflows.bold.hmc
fmriprep.workflows.bold.registration
fmriprep.workflows.bold.resampling
fmriprep.workflows.bold.stc
fmriprep.workflows.bold.t2s
N
nipype (class in fmriprep.config)
nipype_version (fmriprep.config.environment attribute)
notrack (fmriprep.config.execution attribute)
nprocs (fmriprep.config.nipype attribute)
O
omp_nthreads (fmriprep.config.nipype attribute)
output_dir (fmriprep.config.execution attribute)
output_layout (fmriprep.config.execution attribute)
output_spaces (fmriprep.config.execution attribute)
overcommit_limit (fmriprep.config.environment attribute)
overcommit_policy (fmriprep.config.environment attribute)
P
participant_label (fmriprep.config.execution attribute)
plugin (fmriprep.config.nipype attribute)
plugin_args (fmriprep.config.nipype attribute)
project_goodvoxels (fmriprep.config.workflow attribute)
R
regressors_all_comps (fmriprep.config.workflow attribute)
regressors_dvars_th (fmriprep.config.workflow attribute)
regressors_fd_th (fmriprep.config.workflow attribute)
reports_only (fmriprep.config.execution attribute)
resource_monitor (fmriprep.config.nipype attribute)
run_reconall (fmriprep.config.workflow attribute)
run_uuid (fmriprep.config.execution attribute)
S
skull_strip_fixed_seed (fmriprep.config.workflow attribute)
skull_strip_t1w (fmriprep.config.workflow attribute)
skull_strip_template (fmriprep.config.workflow attribute)
slice_time_ref (fmriprep.config.workflow attribute)
sloppy (fmriprep.config.execution attribute)
spaces (fmriprep.config.workflow attribute)
stop_on_first_crash (fmriprep.config.nipype attribute)
T
task_id (fmriprep.config.execution attribute)
templateflow_home (fmriprep.config.execution attribute)
templateflow_version (fmriprep.config.environment attribute)
to_filename() (in module fmriprep.config)
track_carbon (fmriprep.config.execution attribute)
U
use_aroma (fmriprep.config.workflow attribute)
use_bbr (fmriprep.config.workflow attribute)
use_syn_sdc (fmriprep.config.workflow attribute)
utils (fmriprep.config.loggers attribute)
V
version (fmriprep.config.environment attribute)
W
work_dir (fmriprep.config.execution attribute)
workflow (class in fmriprep.config)
(fmriprep.config.loggers attribute)
write_graph (fmriprep.config.execution attribute)
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v: 23.1.4
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