fmriprep
20.1.1
Installation
Usage Notes
Running
fMRIPrep
via Docker containers
Running
fMRIPrep
via Singularity containers
Processing pipeline details
Susceptibility Distortion Correction (SDC)
Outputs of
fMRIPrep
Defining standard and nonstandard spaces where data will be resampled
FAQ, Tips, and Tricks
Contributing to FMRIPREP
Citing
fMRIPrep
Developers - API
What’s new
fmriprep
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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_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)
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)
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_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_ica_aroma_wf() (in module fmriprep.workflows.bold.confounds)
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)
medial_surface_nan (fmriprep.config.workflow attribute)
memory_gb (fmriprep.config.nipype attribute)
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_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)
R
random_seed (fmriprep.config.workflow attribute)
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)
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)
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: 20.1.1
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