Dataset Viewer
The dataset viewer is not available for this subset.
Cannot get the split names for the config 'default' of the dataset.
Exception: SplitsNotFoundError
Message: The split names could not be parsed from the dataset config.
Traceback: Traceback (most recent call last):
File "/usr/local/lib/python3.14/site-packages/datasets/inspect.py", line 286, in get_dataset_config_info
for split_generator in builder._split_generators(
~~~~~~~~~~~~~~~~~~~~~~~~~^
StreamingDownloadManager(base_path=builder.base_path, download_config=download_config)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
)
^
File "/usr/local/lib/python3.14/site-packages/datasets/packaged_modules/arrow/arrow.py", line 45, in _split_generators
self.info.features = datasets.Features.from_arrow_schema(reader.schema)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 1971, in from_arrow_schema
metadata_features = Features.from_dict(metadata["info"]["features"])
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 2009, in from_dict
obj = generate_from_dict(dic)
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 1588, in generate_from_dict
return {key: generate_from_dict(value) for key, value in obj.items()}
~~~~~~~~~~~~~~~~~~^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 1597, in generate_from_dict
feature = obj.pop("feature")
KeyError: 'feature'
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/split_names.py", line 68, in compute_split_names_from_streaming_response
for split in get_dataset_split_names(
~~~~~~~~~~~~~~~~~~~~~~~^
path=dataset,
^^^^^^^^^^^^^
config_name=config,
^^^^^^^^^^^^^^^^^^^
token=hf_token,
^^^^^^^^^^^^^^^
)
^
File "/usr/local/lib/python3.14/site-packages/datasets/inspect.py", line 340, in get_dataset_split_names
info = get_dataset_config_info(
path,
...<6 lines>...
**config_kwargs,
)
File "/usr/local/lib/python3.14/site-packages/datasets/inspect.py", line 291, in get_dataset_config_info
raise SplitsNotFoundError("The split names could not be parsed from the dataset config.") from err
datasets.inspect.SplitsNotFoundError: The split names could not be parsed from the dataset config.Need help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.
CellxGene + scBaseCount, human, tokenized
Geneformer-style rank-value tokenized human cells: a straightforward union of two existing
public corpora, CellxGene Discover (cxg_raw_2025-11-08) and scBaseCount (2025-02-25),
deduplicated (CellxGene's own is_primary_data flag, to drop repeated cells across dataset
views) and tokenized. 211,221,738 cells. This is not an original data-collection effort --
all underlying cells were already public via CellxGene Discover and scBaseCount; this repo
is just that union in a ready-to-train tokenized form.
Contents
- Repo root -- a HuggingFace
datasetsDatasetDict(singletrainsplit) saved viasave_to_disk(dataset_dict.json,train/). Columns:input_ids(large_list, Geneformer-style rank-value encoding,<cls>-prefixed, truncated to 4096 tokens),cell_index,length,species(always"hsapiens"here). vocab/hsapiens_token_dictionary.pkl-- the exact vocab these ids were tokenized against (23,266 genes + special tokens:<pad>=0, <mask>=1, <cls>=2, <eos>=3, genes 4..). This is not the same as the default packagedtoken_dictionary.pkl(~20k genes) -- loading with the wrong vocab silently misaligns gene ids.vocab/hsapiens_gene_medians.pkl-- non-zero median gene expression values used by the tokenizer's normalization step, computed from this same corpus/vocab.
Loading
from huggingface_hub import snapshot_download
from datasets import load_from_disk
local_dir = snapshot_download(repo_id="theislab/cellxgene-scbasecount-human-tokenized", repo_type="dataset")
ds = load_from_disk(local_dir)["train"]
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