Ecosyste.ms: Issues

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

GitHub / theislab/ncem issues and pull requests

#165 - Cell2location workflow, normalized for abundance?

Issue - State: open - Opened by Dillon214 4 months ago
Labels: question

#164 - Interpreting Results from NCEM: Obtaining Ligand-Receptor Pairs

Issue - State: open - Opened by hahia 7 months ago
Labels: question

#163 - 1877 del celldata.uns["spatial"] - error

Issue - State: open - Opened by spatts14 10 months ago
Labels: bug

#162 - Update required: extend_formula_ncem

Issue - State: open - Opened by merelkuijs 11 months ago

#161 - Resolves deprecation error

Pull Request - State: open - Opened by merelkuijs about 1 year ago

#160 - Question about r2 values

Issue - State: open - Opened by showvikbiswas about 1 year ago
Labels: question

#159 - Trouble installing on python 3.10

Issue - State: open - Opened by ivirshup over 1 year ago - 6 comments
Labels: bug

#158 - Linear ncem fixes

Pull Request - State: open - Opened by AnnaChristina over 1 year ago
Labels: bug

#154 - update docs and python versions

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

#153 - Development

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

#152 - Almost zero documentation for the training modules API

Issue - State: open - Opened by arunchakra over 1 year ago - 3 comments
Labels: documentation, enhancement

#151 - cannot get the grid search results

Issue - State: closed - Opened by cam1flag over 1 year ago - 1 comment
Labels: question

#150 - [DEPENDABOT]: Bump actions/checkout from 2 to 3

Pull Request - State: open - Opened by dependabot[bot] almost 2 years ago - 1 comment

#149 - Work with 10X Visium Estimator

Issue - State: open - Opened by junyho486 almost 2 years ago
Labels: question

#148 - LinAlgError: SVD did not converge

Issue - State: open - Opened by Chuang1118 almost 2 years ago - 2 comments
Labels: bug

#147 - Naive Question

Issue - State: open - Opened by Chuang1118 almost 2 years ago
Labels: question

#146 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.3.1

Pull Request - State: open - Opened by dependabot[bot] almost 2 years ago - 1 comment

#145 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.3.0

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 2 comments

#144 - QuestionInternalError: Graph execution error:

Issue - State: open - Opened by Lixinyoung almost 2 years ago - 1 comment
Labels: question

#143 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.2.6

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 2 comments

#142 - Input to the "interaction linear model"

Issue - State: closed - Opened by qsl734 almost 2 years ago - 2 comments
Labels: question

#141 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.2.5

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 2 comments

#140 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.2.4

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments

#139 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.2.3

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments

#138 - [DEPENDABOT]: Bump actions/upload-artifact from 2.2.4 to 3.1.2

Pull Request - State: open - Opened by dependabot[bot] about 2 years ago - 1 comment

#137 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.2.2

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments

#136 - [DEPENDABOT]: Bump pre-commit from 2.12.0 to 2.21.0

Pull Request - State: open - Opened by dependabot[bot] about 2 years ago - 1 comment

#135 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.2.1

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments

#134 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.2.0

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments

#133 - [DEPENDABOT]: Bump pre-commit-hooks from 3.4.0 to 4.4.0

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 1 comment

#132 - Supporting jinja2>=3.0.3

Issue - State: closed - Opened by GaoGN about 2 years ago - 1 comment
Labels: dependencies

#131 - How to run NCEM for CODEX csv/or FCS output data?

Issue - State: open - Opened by DRSEI about 2 years ago - 2 comments
Labels: question

#130 - Issue installing ncem on macOS

Issue - State: open - Opened by DRSEI over 2 years ago
Labels: dependencies

#129 - [DEPENDABOT]: Bump actions/upload-artifact from 2.2.4 to 3.1.1

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#128 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.11

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#127 - [DEPENDABOT]: Bump actions/setup-python from 2.1.4 to 4.3.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment

#126 - compatibility with 10x visium

Issue - State: open - Opened by wangjiawen2013 over 2 years ago - 4 comments
Labels: question

#125 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.10

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#124 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.9

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#123 - added tools skeleton

Pull Request - State: closed - Opened by davidsebfischer over 2 years ago
Labels: enhancement

#122 - Use Tangram mapped visium for ncem

Issue - State: closed - Opened by jkbenotmane over 2 years ago - 10 comments
Labels: question

#121 - [DEPENDABOT]: Bump actions/setup-python from 2.1.4 to 4.2.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#120 - ncem - python 3.9

Issue - State: closed - Opened by AnnaChristina over 2 years ago - 1 comment
Labels: enhancement, dependencies

#119 - Where can I find the cell_metadata.csv file for MERFISH brain data in merfish_brain.ipynb?

Issue - State: closed - Opened by JINJINT over 2 years ago - 1 comment
Labels: question

#118 - [DEPENDABOT]: Bump pep8-naming from 0.11.1 to 0.13.2

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment

#117 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.8

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#116 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.7

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#115 - Development

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

#113 - Revert "[DEPENDABOT]: Bump jinja2 from 3.0.1 to 3.1.2"

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

#112 - Tutorial for deconvoluted visium

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

#111 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.6

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#110 - Linear

Pull Request - State: closed - Opened by chelseabright96 over 2 years ago - 1 comment

#109 - [DEPENDABOT]: Bump pep8-naming from 0.11.1 to 0.13.1

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#108 - Error while loading custom data in NCEM

Issue - State: closed - Opened by archanabhardwaj over 2 years ago - 2 comments
Labels: question

#107 - How to run NCEM for own spatial data?

Issue - State: open - Opened by ankitbioinfo over 2 years ago - 3 comments
Labels: question

#106 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.5

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#105 - [DEPENDABOT]: Bump actions/setup-python from 2 to 4.1.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#104 - Problems using GPU

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

#103 - [DEPENDABOT]: Bump pep8-naming from 0.11.1 to 0.13.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#102 - [DEPENDABOT]: Bump pre-commit from 2.12.0 to 2.20.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#101 - [DEPENDABOT]: Bump actions/setup-python from 2 to 4

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#100 - Error saving the output figures in png or pdf format

Issue - State: closed - Opened by archanabhardwaj over 2 years ago - 1 comment
Labels: bug

#99 - getting only zeros at enrichment step

Issue - State: closed - Opened by archanabhardwaj over 2 years ago - 1 comment
Labels: bug

#98 - Differential interaction

Issue - State: closed - Opened by wangjiawen2013 over 2 years ago - 2 comments
Labels: question

#97 - Question

Issue - State: closed - Opened by wangjiawen2013 over 2 years ago - 1 comment
Labels: question

#96 - Speed up batch generation for `EstimatorNeighborHood`

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

#95 - [DEPENDABOT]: Bump pre-commit-hooks from 3.4.0 to 4.3.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#94 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.4

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#93 - How to implement Input CODEX data for 'NCEM

Issue - State: closed - Opened by Luosanj over 2 years ago - 9 comments
Labels: question

#92 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.3

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#91 - [DEPENDABOT]: Bump actions/upload-artifact from 2.2.4 to 3.1.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments

#90 - Release

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

#89 - Enhance plots

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

#88 - [DEPENDABOT]: Bump jinja2 from 3.0.1 to 3.1.2

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 1 comment

#87 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.2

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#86 - [DEPENDABOT]: Bump actions/upload-artifact from 2.2.4 to 3.0.0

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#85 - [DEPENDABOT]: Bump actions/download-artifact from 2.0.10 to 3.0.0

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 1 comment

#84 - [DEPENDABOT]: Bump pre-commit-hooks from 3.4.0 to 4.2.0

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#83 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3.0.1

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#82 - [DEPENDABOT]: Bump jinja2 from 3.0.1 to 3.1.1

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#81 - [DEPENDABOT]: Bump jinja2 from 3.0.1 to 3.1.0

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#80 - Release

Pull Request - State: closed - Opened by AnnaChristina almost 3 years ago

#79 - add example cell radius to plot

Pull Request - State: closed - Opened by AnnaChristina almost 3 years ago

#78 - Development

Pull Request - State: closed - Opened by AnnaChristina almost 3 years ago - 1 comment

#77 - [DEPENDABOT]: Bump actions/cache from 2.1.6 to 3

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#76 - [DEPENDABOT]: Bump actions/upload-artifact from 2.2.4 to 3

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#75 - [DEPENDABOT]: Bump actions/download-artifact from 2.0.10 to 3

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments

#74 - would ncem work on sequencing-based spatial transcriptomic data?

Issue - State: closed - Opened by LuyiTian almost 3 years ago - 4 comments
Labels: question

#73 - [DEPENDABOT]: Bump jinja2 from 3.0.1 to 3.0.3

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 2 comments

#72 - [DEPENDABOT]: Bump scipy from 1.7.0 to 1.7.3

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment

#71 - [DEPENDABOT]: Bump actions/download-artifact from 2.0.10 to 2.1.0

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 2 comments

#70 - Deconv visium

Pull Request - State: closed - Opened by AnnaChristina about 3 years ago

#69 - extensions to support supervised project

Pull Request - State: open - Opened by SabrinaRichter about 3 years ago - 7 comments

#68 - [DEPENDABOT]: Bump pygments from 2.8.1 to 2.11.2

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment

#67 - [DEPENDABOT]: Bump pygments from 2.8.1 to 2.11.1

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 2 comments

#66 - [DEPENDABOT]: Bump pygments from 2.8.1 to 2.11.0

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 2 comments