labsyspharm/scimap issues and pull requests

#105 - Gating QC plots no longer implemented in scimap.pp.rescale()

Issue - State: open - Opened by CameronFRWatson 24 days ago

#104 - Minor edits to paper

Pull Request - State: closed - Opened by csoneson about 1 month ago

#103 - Update classify.py

Pull Request - State: closed - Opened by sarafiller about 1 month ago - 1 comment

#102 - spatial_lda reproducibility

Issue - State: open - Opened by batukav 2 months ago

#101 - Package test coverage

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

#100 - How do I run the tests?

Issue - State: closed - Opened by kevinyamauchi 3 months ago - 4 comments

#99 - "command not found: pipx" when setting up development environment

Issue - State: closed - Opened by kevinyamauchi 3 months ago - 2 comments

#98 - .vscode in the repo

Issue - State: closed - Opened by kevinyamauchi 3 months ago - 2 comments

#97 - upgrade the latest version

Issue - State: closed - Opened by yas92 3 months ago - 3 comments

#96 - Bug in PIP INSTALL SCIMAP

Issue - State: closed - Opened by virlyananda 3 months ago - 21 comments

#95 - Fixed _classify.py bugs

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

#94 - Bump black from 19.10b0 to 24.3.0

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

#93 - Napari doesnt open and code crashes.

Issue - State: closed - Opened by andreevg04 4 months ago - 5 comments

#92 - np.warnings.filterwarnings('ignore') no longer supported by numpy

Issue - State: closed - Opened by milesbailey121 4 months ago - 3 comments

#91 - Numpy ArrayMemoryError

Issue - State: closed - Opened by lukezhang-811 5 months ago - 1 comment

#90 - Bump aiohttp from 3.9.0 to 3.9.2

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

#89 - Bump aiohttp from 3.8.6 to 3.9.0

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

#88 - Interpretibility of adata.uns['spatial_interaction']

Issue - State: open - Opened by Dillon214 5 months ago - 1 comment

#87 - Bump pillow from 10.1.0 to 10.2.0

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

#86 - Bump jinja2 from 3.1.2 to 3.1.3

Pull Request - State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies

#85 - batch samples analysis

Issue - State: open - Opened by yas92 7 months ago - 3 comments

#84 - Apply MIT license

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

#83 - adata.raw.X vs. adata.X

Issue - State: closed - Opened by josenimo 7 months ago - 1 comment

#82 - %gui qt not running (M2)

Issue - State: closed - Opened by virlyananda 8 months ago - 2 comments

#81 - Added functionality to sm.hl.classify()

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

#80 - Added functionality to classify helper function

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

#79 - Napari automatically downsamples image when using sm.pl.gate_finder()

Issue - State: open - Opened by MargotCh 9 months ago - 3 comments

#78 - Bump urllib3 from 1.26.15 to 1.26.18

Pull Request - State: closed - Opened by dependabot[bot] 9 months ago - 1 comment
Labels: dependencies

#77 - Bump urllib3 from 1.26.15 to 1.26.17

Pull Request - State: closed - Opened by dependabot[bot] 9 months ago - 1 comment
Labels: dependencies

#76 - Installation problem on Mac

Issue - State: closed - Opened by anaskach 10 months ago

#75 - How can I get the test p value of two groups when comparing the distances between two cell types

Issue - State: open - Opened by sailseem 10 months ago - 1 comment

#74 - Wrong figure in the "Getting Started with Scimap" tutorial

Issue - State: closed - Opened by ziyuanzhao2000 10 months ago - 1 comment

#73 - not maching gating area with the image

Issue - State: open - Opened by Elena983 10 months ago - 1 comment

#72 - Can I gate .qptiff image?

Issue - State: open - Opened by xyin0918 10 months ago - 1 comment

#71 - spatial_lda and recurrent cellular neighborhoods

Issue - State: open - Opened by batukav 10 months ago - 4 comments

#70 - how to export the particular data file about the distance calculation

Issue - State: open - Opened by sailseem 11 months ago - 1 comment

#69 - mcmicro_to_scimap add a condition to error out if multiple dim CSV files are provided

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

#68 - Bump certifi from 2022.12.7 to 2023.7.22

Pull Request - State: closed - Opened by dependabot[bot] 11 months ago - 1 comment
Labels: dependencies

#67 - Bump aiohttp from 3.8.4 to 3.8.5

Pull Request - State: closed - Opened by dependabot[bot] 12 months ago - 1 comment
Labels: dependencies

#66 - Add spatial obsm to adata on MCMICRO loading

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

#65 - attempt to fix failed checks

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