The dataset viewer is not available for this split.
Error code: StreamingRowsError
Exception: ValueError
Message: Invalid string class label cache
Traceback: Traceback (most recent call last):
File "/src/services/worker/src/worker/utils.py", line 149, in get_rows_or_raise
return get_rows(
dataset=dataset,
...<4 lines>...
column_names=column_names,
)
File "/src/libs/libcommon/src/libcommon/utils.py", line 272, in decorator
return func(*args, **kwargs)
File "/src/services/worker/src/worker/utils.py", line 129, in get_rows
rows_plus_one = list(itertools.islice(safe_iter(ds, dataset=dataset), rows_max_number + 1))
File "/src/services/worker/src/worker/utils.py", line 544, in safe_iter
yield from ds.decode(False) if ds.features else ds
File "/usr/local/lib/python3.14/site-packages/datasets/iterable_dataset.py", line 3052, in __iter__
for key, example in ex_iterable:
^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/iterable_dataset.py", line 2572, in __iter__
example = _apply_feature_types_on_example(
example, self.features, token_per_repo_id=self.token_per_repo_id
)
File "/usr/local/lib/python3.14/site-packages/datasets/iterable_dataset.py", line 2489, in _apply_feature_types_on_example
encoded_example = features.encode_example(example)
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 2244, in encode_example
return encode_nested_example(self, example)
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 1518, in encode_nested_example
{k: encode_nested_example(schema[k], obj.get(k), level=level + 1) for k in schema}
~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 1541, in encode_nested_example
return schema.encode_example(obj) if obj is not None else None
~~~~~~~~~~~~~~~~~~~~~^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 1210, in encode_example
example_data = self.str2int(example_data)
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 1147, in str2int
output = [self._strval2int(value) for value in values]
~~~~~~~~~~~~~~~~^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/features/features.py", line 1168, in _strval2int
raise ValueError(f"Invalid string class label {value}")
ValueError: Invalid string class label cacheNeed help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.
bio-data-mirror
Byte-identical copies of public biology datasets and model checkpoints, kept here so they stay downloadable when their original host is unavailable or slow. Nothing in this repository was modified: every file has the sha256 of the original release. Please cite and credit the original authors; the licence of each file is the licence of its source.
OpenProblems batch-integration datasets
Luecken et al., Defining and benchmarking open problems in single-cell analysis,
Nat Biotech 2025 (openproblems-bio/task_batch_integration). The solution.h5ad
releases of four CELLxGENE-census datasets, originally at
https://openproblems-data.s3.amazonaws.com/resources/task_batch_integration/datasets/cellxgene_census/<dataset>/log_cp10k/solution.h5ad.
Derived from CELLxGENE data (CC BY 4.0).
| file | sha256 |
|---|---|
openproblems/task_batch_integration/cellxgene_census/dkd/log_cp10k/solution.h5ad |
7ce7bb66e28df2a546cd262b3ba824d864625322699f1ea5aba46fdc70c22fa2 |
openproblems/task_batch_integration/cellxgene_census/gtex_v9/log_cp10k/solution.h5ad |
e7e4575dfa496a021d71b8a66f18317128fc17149e530d427fd24f19b74307f8 |
openproblems/task_batch_integration/cellxgene_census/tabula_sapiens/log_cp10k/solution.h5ad |
7787b79b900fdc26ce1fb04a9a0a8b4b194c71bc42b67ba08efdf13777a4576b |
openproblems/task_batch_integration/cellxgene_census/immune_cell_atlas/log_cp10k/solution.h5ad |
a215cc48819e5dced7b3a24f39194423bdedfc0c4ffa451f626c8ee2572b2e0b |
CellPLM checkpoints
Wen et al., CellPLM: Pre-training of Cell Language Model Beyond Single Cells, ICLR
2024 (OmicsML/CellPLM, BSD-2-Clause). The checkpoint archive OpenProblems passes to
its CellPLM component, originally at
https://openproblems-work.s3.amazonaws.com/cache/cellplm-ckpt.zip.
| file | sha256 |
|---|---|
openproblems/cache/cellplm-ckpt.zip |
e7e2713390e75684534d1ae41159df2b51e18c8b89200dfd287c0b9383a9c454 |
BPNet ChIP-nexus data (mouse ESC, Oct4 / Sox2 / Nanog / Klf4)
Avsec et al., Base-resolution models of transcription-factor binding reveal soft
motif syntax, Nat Genet 2021. Stranded 5' count bigWigs from the authors' data
release, originally at
https://mitra.stanford.edu/kundaje/avsec/chipnexus/oct-sox-nanog-klf/data/<TF>/5prime.counts.<strand>.bw;
the same training data are released on Zenodo (record 3371216) under CC BY 4.0.
| file | sha256 |
|---|---|
bpnet/chipnexus/oct-sox-nanog-klf/data/Oct4/5prime.counts.pos.bw |
404bef059f59015e4028ba6188170800d94a22a943169543d0a340b83387d2fa |
bpnet/chipnexus/oct-sox-nanog-klf/data/Oct4/5prime.counts.neg.bw |
c1ce47f81bc8b036d297f4b4860aa6bd13062b471ed5627bb35e3b2cea9a1520 |
bpnet/chipnexus/oct-sox-nanog-klf/data/Sox2/5prime.counts.pos.bw |
31465c5882dce34ed74bd5d0037c55b8471fdc6fdff4d59ba48c54ae47c403be |
bpnet/chipnexus/oct-sox-nanog-klf/data/Sox2/5prime.counts.neg.bw |
bda66f881bc3243bf3675eb6336b54944b691a77e95c48403193cbfcdf6cab9a |
bpnet/chipnexus/oct-sox-nanog-klf/data/Nanog/5prime.counts.pos.bw |
b7f8a1a726a16def0a08644a07d8bfa6ac306139afa9a6cfb13eaf5a6ceeb2ee |
bpnet/chipnexus/oct-sox-nanog-klf/data/Nanog/5prime.counts.neg.bw |
1d150627466a5dbb9d983b5897b4875a893504316fc6160224854c2872c117dc |
bpnet/chipnexus/oct-sox-nanog-klf/data/Klf4/5prime.counts.pos.bw |
a55360763231e53c06b499fc6918a56113db14023251882d3e86b9747e495d70 |
bpnet/chipnexus/oct-sox-nanog-klf/data/Klf4/5prime.counts.neg.bw |
1f981c3635c7d33e6dfee0010c9eeb4618b2ca97508469f0a7e8e2ce88b02e59 |
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