v1.0.0 Release

Pycytominer v1.0.0 Release

What's Changed

• Updating __about__.py version and fixing pyPI upload action by @gwaybio in #209
• Use numpy to calculate pearson corr of non NaN matrices by @johnarevalo in #193
• Implementing DeepProfiler single cell output and normalization by @roshankern in #210
• Fix #192 warnings for scipy mad func and other deprecated params by @johnarevalo in #194
• Fix of .merge_single_cells() to Load Single-Cell Data into Dataframes by @bunnech in #219
• Add column numbers to DP locations by @roshankern in #218
• Add to Function Converting SQLite to Pandas DataFrame and Merging of Additional Metadata by @bunnech in #228
• Address Installation Dependency Gaps by @d33bs in #232
• Enable custom image table name for SQLite queries in cells.py by @gwaybio in #235
• Enable flexible pyarrow dependency by @d33bs in #236
• Change drop_outlier default to 500 by @bethac07 in #238
• Added check before dropping well column by @kenibrewer in #241
• Allow column subsetting at the time of loading by @bethac07 in #246
• Reflect updated defaults in collate documentation by @bethac07 in #244
• avoid re-validation for excluded features by @johnarevalo in #243
• Add float_datatype parameter for SingleCells compartment load and merge performance flexibility by @d33bs in #248
• Pin SQLAlchemy below 2 by @bethac07 in #251
• Make AWS obey excludes by @bethac07 in #256
• Implementing parquet loading in load_profiles function by @axiomcura in #262
• pin scipy <1.9 by @ErinWeisbart in #258
• New cyto tool: create cell locations file by @shntnu in #257
• Adding gitpod, codespaces, devcontainer configs along with pre-commit code formatting using black and prettier by @kenibrewer in #264
• make default unique_cut value for variance_threshold consistent with feature_select by @alxndrkalinin in #283
• cell_locations: Writing output to S3 was failing; fixed this by @shntnu in #271
• load_profiles should work with PurePath types by @gwaybio in #285
• Change variance_threshold default to 0.01 by @shntnu in #286
• Update python versions - 3.7 deprecation, 3.10 and 3.11 testing support by @gwaybio in #287
• Github actions pre-commit CI pipeline by @kenibrewer in #279
• Update README in preparation for version 1 release by @gwaybio in #289
• Run pre-commit (black, prettier) on all files by @gwaybio in #291
• Changed function arguments throughout pycytominer from str 'none' to None by @kenibrewer in #293
• Update docs by @gwaybio in #290
• logo touchup by @vincerubinetti in #300
• Add pipeline-examples tutorial by @niranjchandrasekaran in #297
• [Hot Fix] README figure wonk by @gwaybio in #295
• Add issue templates by @jenna-tomkinson in #296
• Add informative merge suffixes for platemap and external metadata column collisions by @kenibrewer in #292
• Adding Pycytominer General Walkthrough Tutorial for RTD Website by @axiomcura in #305
• Add "output_type" parameter to major functions by @jenna-tomkinson in #307
• Make sample argument uniform for normalize and feature_select by @gwaybio in #311
• Switch build from setuptools to Poetry and move tests path by @kenibrewer in #303
• added ipython to rtd requirments file by @axiomcura in #309
• Remove master branch references after migrating to main by @kenibrewer in #324
• Bump urllib3 from 1.26.16 to 1.26.17 by @dependabot in #326
• [Refactor] Migrate dependencies in docs/requirements.txt to pyproject.toml by @kenibrewer in #325
• Bump urllib3 from 1.26.17 to 1.26.18 by @dependabot in #329
• refactor(devcontainer): move vscode settings into devcont config by @kenibrewer in #336
• fix(devcontainer): install poetry via devcontainer feature by @kenibrewer in #337
• docs: update CITATION.cff and pyproject.toml authors by @kenibrewer in #339
• fix(build): fix optional poetry dependencies by @kenibrewer in #338
• feat(build): enable poetry-dynamic-versioning and cz changelog by @kenibrewer in #341
• fix(dev): remove gitpod support and update docs by @kenibrewer in #347
• feat: add commitizen cli and commit standards by @kenibrewer in #340
• feat: refactor integration pipeline and add poetry-dynamic-versioning support by @kenibrewer in #342
• bump: version 0.2.0 → 1.0.0 by @kenibrewer in #348

New Contributors

• @johnarevalo made their first contribution in #193
• @roshankern made their first contribution in #210
• @bunnech made their first contribution in #219
• @axiomcura made their first contribution in #262
• @alxndrkalinin made their first contribution in #283
• @jenna-tomkinson made their first contribution in #296
• @dependabot made their first contribution in #326

Full Changelog: v0.2.0...v1.0.0