ckmah bento-tools issues

ckmah / bento-tools

A Python toolkit for subcellular analysis of spatial transcriptomics data

https://bento-tools.readthedocs.io/en/latest/

BSD 2-Clause "Simplified" License

54 stars 6 forks source link

issues

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bento.io.prep KeyError: 'spatialdata_attrs'

#143 pakiessling opened 1 week ago
1
replace upset plots with supervenn

#142 ckmah opened 1 month ago
0
upgrade major dependencies

#141 ckmah closed 1 month ago
1
SpatialData multitable support

#140 ckmah opened 1 month ago
3
compatibility with spatialdata-io formatted datasets

#139 ckmah opened 1 month ago
1
LP Fix

#138 dylanclam12 opened 1 month ago
2
Support for pandas >=2.0.0, spatialdata>=0.1.0

#137 easlinger closed 1 month ago
6
lp_diff_discrete() fails on small data

#136 dylanclam12 opened 1 month ago
0
fix heading and img urls

#135 ckmah closed 1 month ago
0
bump version

#134 ckmah closed 1 month ago
0
v2.1.2

#133 ckmah closed 1 month ago
0
switch to pytest from unittest

#132 ckmah closed 1 month ago
0
v2.1.1 with docs

#131 ckmah closed 1 month ago
2
Docs upgrade for working with SpatialData

#130 ckmah opened 1 month ago
0
incorrect mapping between points and shapes in point_features()

#129 ckmah closed 1 month ago
1
v2.1.1

#128 ckmah closed 1 month ago
2
Import Error.

#127 zy-fang closed 1 month ago
3
enable codecov

#126 ckmah closed 2 months ago
0
bento.tl.lp() fails if cells are missing nuclei

#125 ckmah closed 1 month ago
0
update code coverage check

#124 ckmah closed 1 month ago
0
Update README.md

#123 ckmah closed 3 months ago
0
Update README.md

#122 ckmah closed 3 months ago
0
Update README.md

#121 ckmah closed 3 months ago
0
make sure metadata from formatting is saved to disk

#120 ckmah opened 3 months ago
3
Plotting and metadata setters

#119 ckmah closed 3 months ago
0
Can I use Bento in NGS-based ST data？（Stereo-seq or VisimHD）

#118 zhoutianrui-tongji closed 2 months ago
2
Update "How it Works"

#117 ckmah closed 3 months ago
2
Revise tutorials

#116 ckmah closed 3 months ago
3
API docs

#115 ckmah closed 3 months ago
1
Update README.md

#114 ckmah closed 3 months ago
0
Data structure and assumptions

#113 ckmah opened 5 months ago
0
Refine fluxmap boundaries

#112 ckmah opened 6 months ago
0
functional enrichment for kegg pathways is broken

#111 ckmah closed 2 months ago
1
TypeError: bt.io.prepare

#110 nynkekatinka closed 2 months ago
3
IndexError: index (1945227) out of range

#109 nynkekatinka closed 2 months ago
5
ValueError: setting an array element with a sequence.

#108 lemonsky123 closed 2 months ago
1
add rich and bump version

#107 ckmah closed 11 months ago
0
unit tests and plotting bugs

#106 ckmah closed 11 months ago
0
V2.1

#105 ckmah closed 3 months ago
2
[BPT-155] Spatial Data Refactor

#104 dylanclam12 closed 3 months ago
3
add download badge

#103 ckmah closed 1 year ago
0
RNAflux improvements

#102 ckmah closed 11 months ago
2
reload sample data in tutorial to avoid raster bug for now

#101 ckmah closed 2 months ago
0
Loading in Merfish geopandas .parquet segmentation mask

#100 pakiessling closed 1 year ago
2
bump version

#99 ckmah closed 1 year ago
0
patch bugs affecting tutorials

#98 ckmah closed 1 year ago
1
Ckmah unit tests

#97 ckmah closed 1 year ago
0
V2.0

#96 ckmah closed 1 year ago
1
Update python-package.yml

#95 ckmah closed 1 year ago
0
Bump jupyter-core from 4.10.0 to 4.11.2

#94 dependabot[bot] closed 1 year ago
1