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NEWS.md

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bidser 0.4.0

  • Change read_preproc_scans() to return a file-ordered list of NeuroVec objects, one per matched preprocessed scan, instead of collapsing multiple files into a single container.
  • Fix derivative discovery and legacy fMRIPrep helpers for datasets that place derivative subject folders directly under derivatives/ with prep_dir = "derivatives".
  • Make read_confounds() raise informative, selection-aware errors when no matching participants, confound files, or usable requested confounds are found.
  • Fix create_preproc_mask() to ignore matching JSON sidecars and only read actual NIfTI mask images.
  • Add query_files() as the recommended explicit query API for new workflows, with match_mode, require_entity, and raw/derivatives scope controls.
  • Add get_metadata() for inheritance-aware BIDS metadata resolution with deterministic nearest-sidecar precedence.
  • Extend read_sidecar() with inheritance-aware resolution via inherit and inherit_scope.
  • Add permissive bids_project(..., strict_participants = FALSE) loading for datasets that omit participants.tsv, while keeping compliance reporting explicit.
  • Add derivative discovery via bids_project(..., derivatives = "auto") and derivative_pipelines(), while preserving legacy fmriprep helpers when an fMRIPrep pipeline is present.
  • Add persistent file indexing with bids_index() and indexed query_files() lookups.
  • Add variables_table() and bids_report_data() / bids_report() for tidy run-level inventory and lightweight dataset reporting.
  • Expand acceptance coverage for metadata inheritance, missing-sidecar cases, conflict handling, and derivative-scope behavior.
  • Keep search_files() available for backward compatibility while steering new examples and docs toward query_files().

bidser 0.3.0

  • Fix load_all_events() and read_events() to use tab delimiter for BIDS TSV event files instead of space delimiter.
  • Fix read_sidecar() to handle JSON sidecars containing vector-valued fields (e.g. SliceTiming) by storing them as list-columns instead of failing with a "differing number of rows" error.

bidser 0.2.0

  • TBD.

bidser 0.1.0

  • Initial CRAN release.
  • Read, validate, and query BIDS-compliant neuroimaging projects.
  • Support for fMRIPrep derivatives including confound tables, preprocessed scans, and brain masks.
  • Mock BIDS project creation for testing (create_mock_bids()).
  • Confound processing with PCA reduction and canonical variable aliasing.
  • Visualization of PCA confound scores and loadings (plot.bids_confounds()).
  • Search and filter BIDS files by subject, session, task, run, space, and other entities.