Package index • bidser

All functions

anat_parser(): Anatomical parser constructor

bids_check_compliance(): Basic BIDS Compliance Checks

bids_heatmap(): Create a specialized heatmap visualization of BIDS data

bids_parser(): BIDS filename parsers using regex

bids_project(): Create a BIDS Project Object

bids_subject() bids_subject.bids_project(): Access a single subject from a BIDS project

bids_summary(): Summarize a BIDS dataset

bids_transform(): Apply a transformation to BIDS files

brain_mask(): Retrieve a brain mask for a subject

check_func_scans(): Check Functional Scans in a BIDS Project

clear_example_bids_cache(): Clear Example BIDS Dataset Cache

confound_files(): Get confound files from a BIDS project

create_mock_bids(): Create a Mock BIDS Project Object

create_preproc_mask(<mock_bids_project>): Create Preprocessing Mask (Mock Implementation)

create_preproc_mask(): Create a preprocessing mask from BIDS data

create_preproc_mask(<bids_project>): Create a binary brain mask from preprocessed scans

create_smooth_transformer(): Create a simple smoothing transformer

decode_bids_entities(): Decode BIDS entities back into a filename

encode(): Encode a string into a BIDS key-value list

event_files(): Get event files from a BIDS project

file_pairs(): Find File Pairs in a BIDS Project

flat_list(): Get "flat" representation of BIDS Project

fmap_parser(): Fieldmap parser constructor

fmriprep_anat_parser(): fMRIPrep anatomical parser constructor

fmriprep_func_parser(): fMRIPrep functional parser constructor

func_parser(): Functional parser constructor

func_scans(): Get functional scans from a BIDS project

func_scans(<bids_project>): Get Functional Scans from a BIDS Project

get_example_bids_dataset(): Download Example BIDS Dataset

get_repetition_time(): Get Repetition Time (TR) from a sidecar JSON

list_pack_bids(): List Contents of Packed BIDS Archive

load_all_events(): Load All Event Files

pack_bids(): Pack BIDS Project with Stub or Downsampled Imaging Files

parse(): Parse a file-name into BIDS components

participants(): Get participants from a BIDS project

participants(<mock_bids_project>): Get Participants from Mock BIDS Project

plot(<bids_project>) plot(<mock_bids_project>): Plot a BIDS project as a dendrogram

plot_bids(): Plot a comprehensive visual overview of a BIDS project

preproc_scans(): Get preprocessed functional MRI scans

preproc_scans(<bids_project>): Get preprocessed scans from a BIDS project

print(<mock_bids_project>): Print Mock BIDS Project Summary

read_confounds(<mock_bids_project>): Read Confound Files (Mock Implementation)

read_confounds(): Read Confound Files from a BIDS Project

read_confounds(<bids_project>): Read confound files

read_events(<mock_bids_project>): Read Event Files from Mock BIDS Project

read_events(): Read Event Files from a BIDS Project

read_events(<bids_project>): Read event files from a BIDS project

read_func_scans.bids_project(): Read in a set of four-dimensional functional scans

read_preproc_scans.bids_project(): Read preprocessed functional MRI scans from a BIDS project

read_sidecar(): Read sidecar JSON files and return metadata as a tidy tibble

search_files(): Search files in BIDS structure

sessions(): Get sessions from a BIDS project

sessions(<mock_bids_project>): Get Sessions from Mock BIDS Project

tasks(): Get tasks from a BIDS project

tasks(<mock_bids_project>): Get Tasks from Mock BIDS Project