Shreshth Gandhi commited on
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Update references to old name and add some tutorial links

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  1. README.md +61 -6
README.md CHANGED
@@ -66,12 +66,67 @@ offering broad applications across systems biology, drug discovery, and precisio
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  ```python
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  from datasets import load_dataset
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  # Load dataset in streaming mode
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- ds = load_dataset("vevotx/Tahoe-100m", streaming=True, split="train")
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  # View the first record
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  next(ds.iter(1))
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  ```
 
 
 
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  Please see the [Data Loading Tutorial](tutorials/loading_data.ipynb) for a walkthrough on using the data.
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  ## Dataset Features
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  We provide multiple tables with the dataset including the main data (raw counts) in the `expression_data` table as well as
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  various metadata in the `gene_metadata`,`sample_metadata`,`drug_metadata`,`cell_line_metadata`,`obs_metadata` tables.
@@ -79,7 +134,7 @@ various metadata in the `gene_metadata`,`sample_metadata`,`drug_metadata`,`cell_
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  The main data can be downloaded as follows:
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  ```python
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  from datasets import load_dataset
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- tahoe_100m_ds = load_dataset("vevotx/Tahoe-100M", streaming=True, split="train")
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  ```
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  Setting `stream=True` instantiates an `IterableDataset` and prevents needing to
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  download the full dataset first. See [tutorial](tutorials/loading_data.ipynb) for an end-to-end example.
@@ -104,7 +159,7 @@ The expression_data table has the following fields:
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  ### Gene Metadata
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  ```python
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- gene_metadata = load_dataset("vevotx/Tahoe-100M","gene_metadata", split="train")
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  ```
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  | Column Name | Description |
@@ -118,7 +173,7 @@ gene_metadata = load_dataset("vevotx/Tahoe-100M","gene_metadata", split="train")
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  ### Sample Metadata
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  ```python
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- sample_metadata = load_dataset("vevotx/Tahoe-100M","sample_metadata", split="train")
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  ```
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  The sample_metadata has additional information for aggregate quality metrics for the sample as well as the concentration.
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@@ -135,7 +190,7 @@ The sample_metadata has additional information for aggregate quality metrics for
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  ### Drug Metadata
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  ```python
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- drug_metadata = load_dataset("vevotx/Tahoe-100M","drug_metadata", split="train")
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  ```
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  The drug_metadata has additional information about each treatment.
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@@ -155,7 +210,7 @@ The drug_metadata has additional information about each treatment.
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  ### Cell Line Metadata
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  ```python
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- cell_line_metadata = load_dataset("vevotx/Tahoe-100M","cell_line_metadata", split="train")
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  ```
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  The cell-line metadata table has additional information about the key driver mutations for each cell line.
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  ```python
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  from datasets import load_dataset
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  # Load dataset in streaming mode
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+ ds = load_dataset("tahoebio/Tahoe-100m", streaming=True, split="train")
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  # View the first record
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  next(ds.iter(1))
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  ```
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+ ### Tutorials
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+ Please refer to our tutorials for examples on using the data, accessing metadata tables and converting to/from the anndata format.
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+
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  Please see the [Data Loading Tutorial](tutorials/loading_data.ipynb) for a walkthrough on using the data.
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+ <table>
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+ <thead>
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+ <tr>
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+ <th>Notebook</th>
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+ <th>URL</th>
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+ <th>Colab</th>
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+ </tr>
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+ </thead>
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+ <tbody>
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+ <tr>
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+ <td>Loading the dataset from huggingface, accessing metadata, mapping to anndata</td>
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+ <td>
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+ <a href="https://huggingface.co/datasets/tahoebio/Tahoe-100M/blob/main/tutorials/loading_data.ipynb" target="_blank">
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+ Link
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+ </a>
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+ </td>
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+ <td>
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+ <a href="https://colab.research.google.com/github/huggingface/datasets/blob/main/datasets/tahoebio/Tahoe-100M/tutorials/loading_data.ipynb" target="_blank">
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+ <img src="https://colab.research.google.com/assets/colab-badge.svg" alt="Open in Colab"/>
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+ </a>
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+ </td>
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+ </tr>
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+ </tbody>
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+ </table>
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+
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+ ### Community Resources
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+
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+ Here are a links to few resources created by the community. We would love to feature additional tutorials from the community, if you have built something on top of
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+ Tahoe-100M, please let us know and we would love to feature your work.
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+
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+ <table>
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+ <table>
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+ <thead>
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+ <tr>
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+ <th>Resource</th>
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+ <th>Contributor</th>
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+ <th>URL</th>
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+ </tr>
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+ </thead>
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+ <tbody>
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+ <tr>
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+ <td>Analysing Tahoe-100M with rapids-single-cell, scanpy and dask</td>
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+ <td>Theis Lab (@fabian_theis)</td>
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+ <td>
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+ <a href="https://theislab.github.io/vevo_Tahoe_100m_analysis/" target="_blank">
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+ Link
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+ </a>
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+ </td>
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+ </tr>
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+ </tbody>
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+ </table>
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+
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  ## Dataset Features
131
  We provide multiple tables with the dataset including the main data (raw counts) in the `expression_data` table as well as
132
  various metadata in the `gene_metadata`,`sample_metadata`,`drug_metadata`,`cell_line_metadata`,`obs_metadata` tables.
 
134
  The main data can be downloaded as follows:
135
  ```python
136
  from datasets import load_dataset
137
+ tahoe_100m_ds = load_dataset("tahoebio/Tahoe-100M", streaming=True, split="train")
138
  ```
139
  Setting `stream=True` instantiates an `IterableDataset` and prevents needing to
140
  download the full dataset first. See [tutorial](tutorials/loading_data.ipynb) for an end-to-end example.
 
159
 
160
  ### Gene Metadata
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  ```python
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+ gene_metadata = load_dataset("taheobio/Tahoe-100M","gene_metadata", split="train")
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  ```
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  | Column Name | Description |
 
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  ### Sample Metadata
174
 
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  ```python
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+ sample_metadata = load_dataset("tahoebio/Tahoe-100M","sample_metadata", split="train")
177
  ```
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  The sample_metadata has additional information for aggregate quality metrics for the sample as well as the concentration.
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190
 
191
  ### Drug Metadata
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  ```python
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+ drug_metadata = load_dataset("tahoebio/Tahoe-100M","drug_metadata", split="train")
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  ```
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  The drug_metadata has additional information about each treatment.
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  ### Cell Line Metadata
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  ```python
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+ cell_line_metadata = load_dataset("tahoebio/Tahoe-100M","cell_line_metadata", split="train")
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  ```
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  The cell-line metadata table has additional information about the key driver mutations for each cell line.
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