Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / peng-lab/BaSiCPy issues and pull requests

#155 - Temporal Drift Setting

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

#154 - using predefined flatfield and darkfield profiles

Issue - State: open - Opened by pmaye 3 months ago

#153 - Remove import of datasets module from top level

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

#152 - 1.2.0 release

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

#151 - Bump version: 1.1.0 → 1.2.0-dev0

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

#150 - Updating Pydantic to v2.

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

#149 - Import error

Issue - State: open - Opened by fstur 6 months ago - 1 comment

#148 - Jax version constraint

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

#147 - Installation error

Issue - State: open - Opened by BioinfoTongLI 7 months ago - 6 comments

#146 - General questions about model results and preprocessing of data

Issue - State: closed - Opened by adrtsc 9 months ago - 1 comment

#144 - Updating autotune parameters, bugfixes

Pull Request - State: closed - Opened by yfukai 10 months ago - 1 comment

#143 - Create codeofconduct.rst

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

#142 - Include code of conduct

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

#141 - Create CODE_OF_CONDUCT.md

Pull Request - State: closed - Opened by yfukai 10 months ago - 1 comment

#140 - Metric update

Pull Request - State: closed - Opened by yfukai 11 months ago

#139 - Add baseline to save load

Pull Request - State: closed - Opened by yfukai 11 months ago - 1 comment

#138 - Frames argument in transform

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

#137 - Fix type validation for BaSiC autosegment field

Pull Request - State: closed - Opened by carshadi 12 months ago - 4 comments

#136 - Save/load model should also handle self.baseline

Issue - State: open - Opened by sooheon about 1 year ago

#135 - Fix #133, loading saved model

Pull Request - State: closed - Opened by sooheon about 1 year ago - 1 comment

#134 - Update basicpy.py

Pull Request - State: closed - Opened by sooheon about 1 year ago

#132 - Add output of corrected images to example notebooks

Pull Request - State: closed - Opened by jenna-tomkinson about 1 year ago - 7 comments

#131 - Update installation doc for mac M1

Pull Request - State: closed - Opened by yfukai about 1 year ago - 2 comments

#130 - Autosegmentation

Pull Request - State: closed - Opened by yfukai over 1 year ago - 3 comments

#129 - Bump Minor Version

Pull Request - State: closed - Opened by Nicholas-Schaub over 1 year ago

#128 - Adding autotune

Pull Request - State: closed - Opened by yfukai over 1 year ago - 5 comments

#127 - Memory issue

Issue - State: open - Opened by drippypale over 1 year ago - 4 comments

#126 - Add entropy metric

Pull Request - State: closed - Opened by Nicholas-Schaub over 1 year ago

#125 - Remove upper JAX version limit

Pull Request - State: closed - Opened by yfukai over 1 year ago

#124 - Update README.md

Pull Request - State: closed - Opened by yfukai over 1 year ago - 1 comment

#123 - Documentation fix

Pull Request - State: closed - Opened by yfukai over 1 year ago

#122 - Fixed link to outline image

Pull Request - State: closed - Opened by yfukai over 1 year ago - 1 comment

#121 - Unable to run on Windows

Issue - State: closed - Opened by caolonghao over 1 year ago - 2 comments

#120 - Unable to use BaSiCPy with static images

Issue - State: closed - Opened by jenna-tomkinson over 1 year ago - 5 comments
Labels: documentation, question

#119 - Documentation for the channel dimension

Pull Request - State: closed - Opened by yfukai over 1 year ago

#118 - Multiple Channel Correction

Issue - State: closed - Opened by Nelson-Gon over 1 year ago - 2 comments

#117 - Fixed broken documentation.

Pull Request - State: closed - Opened by yfukai almost 2 years ago

#116 - Ignored language stat of jupyter notebook

Pull Request - State: closed - Opened by yfukai almost 2 years ago

#115 - Installation doc

Pull Request - State: closed - Opened by yfukai almost 2 years ago

#114 - Merge dev branch to main

Pull Request - State: closed - Opened by yfukai almost 2 years ago

#113 - v1.0.1

Pull Request - State: closed - Opened by Nicholas-Schaub almost 2 years ago - 1 comment

#112 - Fixed requirements.txt for sphinx gallery fix

Pull Request - State: closed - Opened by yfukai almost 2 years ago

#111 - Change log level to warning

Pull Request - State: closed - Opened by Nicholas-Schaub almost 2 years ago

#110 - removed device variable from the basic object

Pull Request - State: closed - Opened by yfukai almost 2 years ago

#109 - Cleanup

Pull Request - State: closed - Opened by Nicholas-Schaub almost 2 years ago - 2 comments

#108 - command line interface

Pull Request - State: open - Opened by yfukai almost 2 years ago

#107 - Update documents

Pull Request - State: closed - Opened by yfukai almost 2 years ago - 1 comment

#106 - Update config names

Pull Request - State: closed - Opened by yfukai almost 2 years ago - 1 comment

#105 - Add a list of publications that cite BaSiC to the docs

Issue - State: open - Opened by tdmorello almost 2 years ago

#103 - Update coef definitions

Pull Request - State: closed - Opened by yfukai about 2 years ago - 1 comment

#102 - Create a verbose option

Issue - State: closed - Opened by KoenDesplenter about 2 years ago - 1 comment

#101 - `device` has no effects

Issue - State: closed - Opened by yfukai about 2 years ago

#100 - Installation of BaSiCPy fails in environment with recent version of setuptools

Issue - State: closed - Opened by SilverViking about 2 years ago - 5 comments

#99 - Command line interface

Issue - State: open - Opened by yfukai about 2 years ago - 4 comments
Labels: enhancement

#98 - DCT tools update

Pull Request - State: closed - Opened by yfukai about 2 years ago - 6 comments

#97 - Dockerfile

Pull Request - State: closed - Opened by yfukai about 2 years ago - 1 comment

#96 - Minor change before beta release

Pull Request - State: closed - Opened by yfukai about 2 years ago - 3 comments

#95 - Update hashes

Pull Request - State: closed - Opened by yfukai about 2 years ago - 3 comments

#94 - Release

Pull Request - State: closed - Opened by Nicholas-Schaub about 2 years ago - 2 comments

#93 - Fix `fit` bug for dask array inputs

Pull Request - State: closed - Opened by yfukai about 2 years ago

#92 - Update example data

Pull Request - State: closed - Opened by yfukai about 2 years ago

#91 - Saving Corrected Images Example

Issue - State: closed - Opened by jenna-tomkinson about 2 years ago - 6 comments
Labels: documentation, question

#90 - Sample data value overflow

Issue - State: closed - Opened by tdmorello about 2 years ago - 2 comments
Labels: bug

#89 - README fix

Pull Request - State: closed - Opened by yfukai about 2 years ago

#88 - Test Windows and macOS

Pull Request - State: closed - Opened by yfukai about 2 years ago - 1 comment

#87 - Add compatibility statement to docs

Issue - State: closed - Opened by tdmorello over 2 years ago - 1 comment

#86 - Review examples in docstrings

Issue - State: closed - Opened by tdmorello over 2 years ago

#85 - Decide the shape for the `flatfield` and `darkfield`

Issue - State: closed - Opened by yfukai over 2 years ago - 2 comments

#84 - Add copyright notice to documentation.

Issue - State: closed - Opened by yfukai over 2 years ago - 1 comment
Labels: documentation

#83 - Make the repository citable before the beta release

Issue - State: open - Opened by yfukai over 2 years ago - 1 comment
Labels: documentation

#82 - Update readme for beta release

Pull Request - State: closed - Opened by yfukai over 2 years ago

#81 - Example of implementation in multi-channel microscopy images

Issue - State: open - Opened by gwaybio over 2 years ago - 5 comments

#80 - Timelapse option in `transform`

Pull Request - State: closed - Opened by yfukai over 2 years ago - 2 comments

#79 - Update defaults

Pull Request - State: closed - Opened by yfukai over 2 years ago

#78 - Update notebooks

Pull Request - State: closed - Opened by yfukai over 2 years ago - 2 comments

#77 - Fix save/load bug for 3D images

Pull Request - State: closed - Opened by yfukai over 2 years ago

#76 - update contributions

Pull Request - State: closed - Opened by yfukai over 2 years ago

#75 - Fix/release

Pull Request - State: closed - Opened by Nicholas-Schaub over 2 years ago - 2 comments

#74 - Fix `lambda flatfield` bug

Pull Request - State: closed - Opened by yfukai over 2 years ago

#73 - Update docs

Pull Request - State: closed - Opened by tdmorello over 2 years ago - 3 comments

#72 - Feat/release

Pull Request - State: closed - Opened by Nicholas-Schaub over 2 years ago - 2 comments

#71 - Implement baseline-only fit

Pull Request - State: open - Opened by yfukai over 2 years ago

#70 - Repository cleanup

Pull Request - State: closed - Opened by yfukai over 2 years ago - 2 comments

#69 - Solve jax version issue with colab

Pull Request - State: closed - Opened by yfukai over 2 years ago

#68 - Update README before beta release

Issue - State: closed - Opened by tdmorello over 2 years ago - 1 comment
Labels: documentation

#67 - Changing settings doesn't work

Issue - State: closed - Opened by dataMaster-Kris over 2 years ago - 1 comment
Labels: wontfix

#66 - Update contribution notes

Pull Request - State: closed - Opened by yfukai over 2 years ago - 1 comment

#65 - Timelapse illumination correction method [MICCAI 2020]

Issue - State: closed - Opened by gwaybio over 2 years ago - 5 comments

#64 - Example notebook

Pull Request - State: closed - Opened by yfukai over 2 years ago - 1 comment

#63 - Example notebook

Issue - State: closed - Opened by yfukai over 2 years ago
Labels: documentation

#62 - Major update with LADMAP implementation

Pull Request - State: closed - Opened by yfukai over 2 years ago - 2 comments

#61 - Provide license

Pull Request - State: closed - Opened by yfukai over 2 years ago

#60 - API Documentation

Issue - State: closed - Opened by yfukai over 2 years ago
Labels: documentation, enhancement

#59 - Extend input image to 3D

Issue - State: closed - Opened by yfukai over 2 years ago
Labels: enhancement

#58 - Updated LADMAP implementation with JAX JIT

Pull Request - State: closed - Opened by yfukai over 2 years ago - 10 comments

#57 - Data in package

Pull Request - State: closed - Opened by yfukai over 2 years ago - 9 comments

#56 - Update README.md

Pull Request - State: closed - Opened by tying84 over 2 years ago