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Merged
Mena-SA-Kamel merged 4 commits into from
Jan 28, 2025
Merged

Release/jan 2025 #25

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511fa16
Updating twine configurations and Zenodo link
Mena-SA-Kamel Jan 28, 2025
30183c6
Updating twine configurations and Zenodo link
Mena-SA-Kamel Jan 28, 2025
037707d
Merge branch 'release/jan-2025' of https://github.com/Sanofi-Public/e…
Mena-SA-Kamel Jan 28, 2025
b9d49cc
Removing egg-info folder
Mena-SA-Kamel Jan 28, 2025
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6 changes: 3 additions & 3 deletions pyproject.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,8 @@ build-backend = "setuptools.build_meta"

[project]
name = "enact-SO"
version = "0.1"
description = "ENACT is the first tissue-agnostic pipeline that integrates advanced cell segmentation with Visium HD transcriptomics data to infer cell types across whole tissue sections. This pipeline incorporates novel bin-to-cell assignment methods, enhancing the accuracy of single-cell transcript estimates."
version = "0.2"
description = "ENACT is a self-contained pipeline designed to streamline Visium HD analysis from cell segmentation to annotation, enabling integration with advanced spatial analysis tools."
license ={ file = "LICENSE.md" }
readme = "README.md"
requires-python = ">=3.9"
Expand All @@ -30,7 +30,7 @@ dependencies = [
"shapely==2.0.5",
"stardist==0.9.1",
"tifffile==2024.7.24",
"scvi-tools==1.1.6",
"scvi-tools==1.1.6.post2",
"scanpy==1.10.2",
"geopandas==1.0.1",
"tensorflow==2.17.0",
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2 changes: 1 addition & 1 deletion reproduce_paper_results.sh
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Expand Up @@ -7,7 +7,7 @@ PY_ENV_PATH=$1

conda activate $PY_ENV_PATH

FILE_URL="https://zenodo.org/records/13887921/files/ENACT_supporting_files.zip"
FILE_URL="https://zenodo.org/records/14748859/files/ENACT_supporting_files.zip"
OUTPUT_FILE="ENACT_supporting_files.zip"

# Download ENACT supporting files if they are not present
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