open2c/bioframe issues and pull requests

#220 - add pybigtool engine to to_bigwig

Pull Request - State: open - Opened by golobor about 2 months ago

#219 - Bioframe.overlap RAM error

Issue - State: open - Opened by talipzengin about 2 months ago - 1 comment

#218 - Add several sp-repo-review checks

Pull Request - State: closed - Opened by nvictus 3 months ago

#217 - Bump to v0.7.2

Pull Request - State: closed - Opened by nvictus 3 months ago

#216 - Prevent `read_alignments` tests on big-endian arch

Pull Request - State: closed - Opened by nvictus 3 months ago

#215 - Two tests segfault on s390x

Issue - State: closed - Opened by penguinpee 3 months ago - 3 comments

#214 - Typo in the changelog

Issue - State: closed - Opened by penguinpee 3 months ago

#213 - build(deps): update numpy requirement from <2,>=1.10 to >=1.10,<3

Pull Request - State: open - Opened by dependabot[bot] 3 months ago
Labels: dependencies, python

#212 - Merging based on unrelated intervals possible?

Issue - State: open - Opened by marade 4 months ago

#211 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: open - Opened by pre-commit-ci[bot] 4 months ago

#210 - Minor version bump

Pull Request - State: closed - Opened by nvictus 4 months ago

#209 - Python 3.13: test_assembly_info fails with AttributeError

Issue - State: open - Opened by penguinpee 5 months ago - 2 comments

#208 - feature request

Issue - State: open - Opened by WANGchuang715 5 months ago - 1 comment

#207 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 5 months ago

#206 - Fix issue in read_bam implementation, it got the wrong contig name

Pull Request - State: closed - Opened by gamazeps 5 months ago - 1 comment

#205 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 5 months ago

#204 - Refactor join arrayops and intidx internals

Pull Request - State: closed - Opened by nvictus 5 months ago

#203 - Add to_bed as well as a few tests

Pull Request - State: closed - Opened by gamazeps 5 months ago

#202 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 5 months ago

#201 - Add pre-commit hooks

Pull Request - State: closed - Opened by nvictus 5 months ago - 1 comment

#200 - build(deps): bump actions/checkout from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 5 months ago
Labels: dependencies, github_actions

#199 - build(deps): bump actions/setup-python from 4 to 5

Pull Request - State: closed - Opened by dependabot[bot] 5 months ago
Labels: dependencies, github_actions

#198 - Add `bedtools intersect` conversions

Pull Request - State: closed - Opened by gamazeps 6 months ago - 2 comments

#197 - Restore and document additional `return_input` args for `overlap`

Issue - State: open - Opened by nvictus 6 months ago

#196 - Patch bump

Pull Request - State: closed - Opened by nvictus 6 months ago

#195 - build: Use importlib.metadata for versioning

Pull Request - State: closed - Opened by nvictus 6 months ago

#194 - chore: Migrate from setuptools pkg_resources to importlib.resources

Pull Request - State: closed - Opened by nvictus 6 months ago

#192 - #167: Replaced np.int with int as the attribute is deprecated by numpy

Pull Request - State: closed - Opened by harshit148 7 months ago

#191 - fix the type error in make_chromarms

Pull Request - State: closed - Opened by milandvijay 7 months ago - 1 comment

#190 - CI: Implement Issue Template for bioframe Repository

Issue - State: open - Opened by milandvijay 7 months ago

#189 - test_make_chromarms fails with TypeError using NumPy 1.24.4

Issue - State: closed - Opened by penguinpee 7 months ago - 2 comments

#188 - default dtypes & core.construction

Issue - State: open - Opened by smitkadvani 8 months ago - 4 comments

#187 - Update hgdownload url in docs and assembly info

Pull Request - State: closed - Opened by nvictus 8 months ago - 1 comment

#186 - Change in goldenpath URL

Issue - State: closed - Opened by nvictus 8 months ago - 1 comment

#185 - Closest improved

Pull Request - State: closed - Opened by agalitsyna 8 months ago

#184 - Overlap point segment patch #183

Pull Request - State: closed - Opened by smitkadvani 8 months ago - 3 comments

#183 - overlap between a point and a segment is broken

Issue - State: closed - Opened by golobor 8 months ago
Labels: bug

#182 - cols and df_view_col passed to downstream functions

Pull Request - State: closed - Opened by smitkadvani 9 months ago - 1 comment

#181 - v0.6.0

Pull Request - State: closed - Opened by nvictus 9 months ago

#180 - Add contributing guide and streamline readme.

Pull Request - State: closed - Opened by nvictus 9 months ago

#179 - Update guide-quickstart.rst

Pull Request - State: closed - Opened by nvictus 9 months ago

#178 - Preserve coordinate dtypes

Pull Request - State: closed - Opened by nvictus 9 months ago - 3 comments

#177 - updates from main

Pull Request - State: closed - Opened by gfudenberg 9 months ago - 1 comment

#176 - maint: We thank the reviewer...

Pull Request - State: closed - Opened by nvictus 10 months ago

#175 - make chromarms - broken, or changed?

Issue - State: closed - Opened by Phlya 11 months ago - 3 comments

#174 - Deprecation of `is_categorical_dtype` in pandas 2

Issue - State: closed - Opened by benjaminbauer 11 months ago - 1 comment
Labels: enhancement

#173 - coverage crashes when `cols` is specified

Issue - State: closed - Opened by benjaminbauer 11 months ago - 2 comments
Labels: bug

#172 - Update .readthedocs.yaml

Pull Request - State: closed - Opened by Phlya 12 months ago

#171 - Update overlap docstring - overlap column

Pull Request - State: closed - Opened by sergpolly 12 months ago - 1 comment

#170 - fix coverage with custom cols1

Pull Request - State: closed - Opened by sergpolly 12 months ago - 3 comments

#169 - subtract error in windows

Issue - State: closed - Opened by meisproject about 1 year ago - 1 comment
Labels: enhancement

#168 - to_bigwig: wrong format for chromsizes

Issue - State: open - Opened by rusch-emma about 1 year ago - 2 comments
Labels: enhancement

#167 - Assorted bugs and possibly undefined behavior in closest

Issue - State: open - Opened by endrebak about 1 year ago
Labels: bug