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Merge branch 'rc/0.3.0'
2 parents 8b52e7c + 8e56c9e commit e4a6696

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‎.github/workflows/abc_atlas_access_ci.yaml‎

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strategy:
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matrix:
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os: [ "macos-latest", "windows-latest", "ubuntu-latest" ]
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python-version: [ "3.8", "3.9", "3.10", "3.11" ]
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python-version: [ "3.8", "3.9", "3.10", "3.11", "3.12" ]
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fail-fast: false
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steps:
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- uses: actions/checkout@v4

‎_toc.yml‎

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chapters:
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- file: notebooks/getting_started
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- file: notebooks/general_accessing_10x_snRNASeq_tutorial
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- file: notebooks/abc_atlas_selection_example
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- caption: DATA
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chapters:
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- file: descriptions/WMB_dataset

‎descriptions/MERFISH-C57BL6J-638850.md‎

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The expression matrices and associated metadata is hosted on AWS S3 bucket as a
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AWS Public Dataset:
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| Component | Current Version | Size |
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|---|--|---|
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| Component | Current Version | Size |
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|---|--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|---|
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| Expression Matrices | [s3://allen-brain-cell-atlas/expression_matrices/MERFISH-C57BL6J-638850/20230830](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#expression_matrices/MERFISH-C57BL6J-638850/20230830/) | 14.2 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/MERFISH-C57BL6J-638850/20231215](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/MERFISH-C57BL6J-638850/20231215/) | 1.81 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/MERFISH-C57BL6J-638850/20241115](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/MERFISH-C57BL6J-638850/20241115/) | 1.81 GB |
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‎descriptions/WHB-10X-clustering.md‎

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| Component | Current Version | Size |
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|------------------------|--------------------------------------------------------------------------------------------------------------------------------------------------------------|----------|
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| Cell and gene metadata | [s3://allen-brain-cell-atlas/metadata/WHB-10Xv3/20240330](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/WHB-10Xv3/20240330/) | 862.1 MB |
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| Cell and gene metadata | [s3://allen-brain-cell-atlas/metadata/WHB-10Xv3/20241115](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/WHB-10Xv3/20241115/) | 862.1 MB |
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‎descriptions/WHB-10Xv3.md‎

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| Component | Current Version | Size |
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|---|--|---------|
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| Expression Matrices | [s3://allen-brain-cell-atlas/expression_matrices/WHB-10Xv3/20240330/](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#expression_matrices/WHB-10Xv3/20240330/) | 70.0 GB |
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| Cell and gene metadata | [s3://allen-brain-cell-atlas/metadata/WHB-10Xv3/20241115](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/WHB-10Xv3/20241115/) | 862.1 MB |
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‎descriptions/WMB-10X.md‎

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| Component | Current Version | Size |
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|---|--|--|
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| Metadata | [s3://allen-brain-cell-atlas/metadata/WMB-10X/20231215](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/WMB-10X/20231215/) | 2.39 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/WMB-10X/20241115](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/WMB-10X/20241115/) | 2.39 GB |
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‎descriptions/WMB-10XMulti.md‎

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The expression matrices and associated metadata is hosted on AWS S3 bucket as a
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AWS Public Dataset:
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| Expression Matrices | [s3://allen-brain-cell-atlas/expression_matrices/WMB-10XMulti/20230830](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#expression_matrices/WMB-10Xv3/20230630/) | 176.31 GB |
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| Component | Current Version | Size |
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|---|------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|--------|
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| Expression Matrices | [s3://allen-brain-cell-atlas/expression_matrices/WMB-10XMulti/20230830](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#expression_matrices/WMB-10XMulti/20230830/) | 211 MB |
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‎descriptions/Zhuang-ABCA-1.md‎

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The expression matrices and associated metadata is hosted on AWS S3 bucket as a
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| Component | Current Version | Size |
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| Expression Matrices | [s3://allen-brain-cell-atlas/expression_matrices/Zhuang-ABCA-1/20230830/](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#expression_matrices/Zhuang-ABCA-1/20230830/) | 3.09 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-1/20231215](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-1/20231215/) | 1.33 GB |
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| CCF Coordinates | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-1-CCF/20230830](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-1-CCF/20230830/) | 0.21 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-1/20241115](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-1/20241115/) | 1.33 GB |
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| CCF Coordinates | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-1-CCF/20230830](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-1-CCF/20230830/) | 0.21 GB |
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‎descriptions/Zhuang-ABCA-2.md‎

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| Component | Current Version | Size |
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| Expression Matrices | [s3://allen-brain-cell-atlas/expression_matrices/Zhuang-ABCA-2/20230830/](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#expression_matrices/Zhuang-ABCA-2/20230830/) | 1.30 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-2/20231215](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-2/20231215/) | 0.57 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-2/20241115](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-2/20241115/) | 0.57 GB |
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| CCF Coordinates | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-2-CCF/20230830](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-2-CCF/20230830/) | 0.08 GB |
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‎descriptions/Zhuang-ABCA-3.md‎

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| Expression Matrices | [s3://allen-brain-cell-atlas/expression_matrices/Zhuang-ABCA-3/20230830/](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#expression_matrices/Zhuang-ABCA-3/20230830/) | 1.69 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-3/20231215](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-3/20231215/) | 0.75 GB |
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| Metadata | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-3/20241115](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-3/20241115/) | 0.75 GB |
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| CCF Coordinates | [s3://allen-brain-cell-atlas/metadata/Zhuang-ABCA-3-CCF/20230830](https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/Zhuang-ABCA-3-CCF/20230830/) | 0.12 GB |
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