Issues

• Move pysam from dev-dependencies to dependencies?

  open2c/bioframe#242 · Filter by author ljw20180420 opened on Jul 17, 2026

• There is a bug in subtract() function.

  open2c/bioframe#229 · Filter by author Luobiny opened on Apr 14, 2025
  1

• Bioframe.overlap RAM error

  open2c/bioframe#219 · Filter by author talipzengin opened on Aug 3, 2024
  2

• Python 3.13: test_assembly_info fails with AttributeError

  open2c/bioframe#209 · Filter by author penguinpee opened on May 10, 2024
  2

• Restore and document additional return_input args for overlap

  open2c/bioframe#197 · Filter by author nvictus opened on Apr 14, 2024

• default dtypes & core.construction

  open2c/bioframe#188 · Filter by author smitkadvani opened on Feb 12, 2024
  4

• to_bigwig: wrong format for chromsizes

  enhancement
  open2c/bioframe#168 · Filter by author rusch-emma opened on Aug 18, 2023
  2

• Assorted bugs and possibly undefined behavior in closest

  bug
  open2c/bioframe#167 · Filter by author endrebak opened on Jul 16, 2023
  1

• Suggestion for updating the closest function.

  enhancement
  open2c/bioframe#163 · Filter by author WANGchuang715 opened on Jun 7, 2023
  6

• bioframe.assign_view drop_unassigned drops all NaNs?

  question
  open2c/bioframe#160 · Filter by author Phlya opened on May 31, 2023
  3

• reading bigwigs into dataframes

  enhancement
  open2c/bioframe#153 · Filter by author gfudenberg opened on May 25, 2023

• Passing metadata (/configuration?) through DataFrame.attrs

  enhancement
  open2c/bioframe#151 · Filter by author ivirshup opened on May 7, 2023

• Strand-aware expand (bedtools slop)

  enhancement
  open2c/bioframe#144 · Filter by author ivirshup opened on Apr 18, 2023
  13

• Bring back GTF attributes parser?

  enhancement
  open2c/bioframe#141 · Filter by author nvictus opened on Apr 3, 2023
  2

• Streamlining input validation for ops

  enhancement
  open2c/bioframe#140 · Filter by author nvictus opened on Apr 3, 2023

• Alternative DataFrame class(es) for OOC + speed

  enhancement
  open2c/bioframe#137 · Filter by author ivirshup opened on Mar 6, 2023
  4

• strand-aware closest

  enhancement
  open2c/bioframe#129 · Filter by author gfudenberg opened on Nov 7, 2022
  1

• updates for schemas

  enhancement
  open2c/bioframe#123 · Filter by author gfudenberg opened on Sep 28, 2022
  8

• improve documentation for overlap "return_overlap" argument

  enhancement
  open2c/bioframe#122 · Filter by author gonzalobenegas opened on Sep 28, 2022
  3

• bin-table operations

  enhancement
  open2c/bioframe#116 · Filter by author agalitsyna opened on Jun 15, 2022
  1

• make_viewframe takes forever on 100_000 entries

  enhancement
  open2c/bioframe#114 · Filter by author sergpolly opened on Mar 18, 2022
  1

• should we add is_equal to checks for frames comparison (the way we want it) ?

  question
  open2c/bioframe#97 · Filter by author sergpolly opened on Sep 17, 2021
  1

• behavior of on=[]

  enhancement
  open2c/bioframe#91 · Filter by author gfudenberg opened on Aug 26, 2021
  2

• add error chaining for is_viewframe

  enhancement
  open2c/bioframe#88 · Filter by author gfudenberg opened on Aug 17, 2021

• Creating a more extensive and generative test suite?

  enhancement
  open2c/bioframe#43 · Filter by author endrebak opened on Jun 12, 2020