datasets
Training and evaluation data, with the modality, task and licence stated up front. Listed live from the Hugging Face Hub.
bacbench-antibiotic-resistance-protein-sequences
Dataset for antibiotic resistance prediction from whole-bacterial genomes (protein sequences)
A dataset of 25,032 bacterial genomes across 39 species with antimicrobial resistance labels.
The genome protein sequences have been extracted from GenBank. Each row contains whole bacterial genome, with spaces
separating different contigs present in the genome.
The antimicrobial resistance labels have been extracted from Antibiotic Susceptibility Test (AST) Browser, accessed 23 Oct, 2024.)… See the full description on the dataset page: https://huggingface.co/datasets/macwiatrak/bacbench-antibiotic-resistance-protein-sequences.carbon-cpu-enriched-sequences
carbon-cpu-enriched-sequences
A CPU-enriched subset of the carbon pretraining corpus (eukaryote_generator), combining original source fields with normalized sequences
and row-level features for quality analysis, GPU enrichment and embedding generation.
Information of Features
Feature
Type
Description
record_id
string
NCBI Identifier linking the row back to the source genomic record. It provides the primary record-level identity.
begin_of_sequence… See the full description on the dataset page: https://huggingface.co/datasets/AINovice2005/carbon-cpu-enriched-sequences.carbon-cpu-enriched-sequences-sampledoas-paired-sequence-data
Dataset Card for OAS Paired Sequence Data
Dataset Summary
Paired heavy- and light-chain sequence information from the Observed Antibody Space (OAS) database, downloaded on September 9, 2023.
sequence-recovery
Next K-mer Prediction
Abouts
The Next K-mer Prediction task is a zero-shot evaluation method introduced in the GENERator paper to assess the quality of pretrained models. It involves inputting a sequence segment into the model and having it predict the next K base pairs. The predicted sequence is then compared to the actual sequence to assess accuracy.
Sequence: The input sequence has a maximum length of 96k base pairs (bp). You can control the number of input… See the full description on the dataset page: https://huggingface.co/datasets/GenerTeam/sequence-recovery.sequences_only_correct_V8bacbench-antibiotic-resistance-protein-sequences
Dataset for antibiotic resistance prediction from whole-bacterial genomes (protein sequences)
A dataset of 25,032 bacterial genomes across 39 species with antimicrobial resistance labels.
The genome protein sequences have been extracted from GenBank. Each row contains whole bacterial genome, with spaces
separating different contigs present in the genome.
The antimicrobial resistance labels have been extracted from Antibiotic Susceptibility Test (AST) Browser, accessed 23 Oct, 2024.)… See the full description on the dataset page: https://huggingface.co/datasets/mbafca2/bacbench-antibiotic-resistance-protein-sequences.bac_16S_sequencesbacbench-ppi-stringdb-protein-sequences
Dataset for protein-protein interaction prediction across bacteria (Protein sequences)
A dataset of 10,533 bacterial genomes across 6,956 species with protein-protein interaction (PPI) scores for each genome.
The genome protein sequences and PPI scores have been extracted from STRING DB.
Each row contains a set of protein sequences from a genome, ordered by their location on the chromosome and plasmids and a set of associated PPI scores.
The PPI scores have been extracted using the… See the full description on the dataset page: https://huggingface.co/datasets/macwiatrak/bacbench-ppi-stringdb-protein-sequences.153-angiosperm-species-32k-sequences-shuffledsequence_homology_based_v2pubmed-2019-pythia-word-tfidf-pubmedqa-clean-val-sequencespubmed-2019-pythia-word-tfidf-invfreq-pubmedqa-clean-val-sequencesyeast-gene-sequence-homology-pretokenized-NTbacbench-phenotypic-traits-protein-sequences
Dataset for phenotypic traits prediction from whole-bacterial genomes (protein sequences)
A dataset of 24,462 bacterial genomes across 15,477 species with diverse phenotypic traits as labels.
The genome protein sequences have been extracted from GenBank. Each row contains a list of protein sequences present in the
bacterial genome, ordered by their location on the chromosome and plasmids.
The phenotypic traits have been extracted from a number of sources [1, 2, 3] and include a… See the full description on the dataset page: https://huggingface.co/datasets/macwiatrak/bacbench-phenotypic-traits-protein-sequences.robomme_sequencerecoveryvertically
RoboMME — SequenceRecoveryVertically (Video QA)
Video-QA dataset for the SequenceRecoveryVertically task from
RoboMME, a ManiSkill/SAPIEN benchmark for
memory-augmented robotic manipulation. The agent watches a demonstration video,
remembers the arrangement of cubes, and rebuilds it around a pre-placed anchor
cube before pressing a stop button.
Contents
episodes.parquet — 500 train episodes with per-episode metadata (seeds,
difficulty, task semantics, language… See the full description on the dataset page: https://huggingface.co/datasets/Hiesh/robomme_sequencerecoveryvertically.robomme_sequencerecoveryhorizontally
RoboMME — SequenceRecoveryHorizontally (Video QA)
Video-QA dataset for the SequenceRecoveryHorizontally task from
RoboMME, a ManiSkill/SAPIEN benchmark for
memory-augmented robotic manipulation. The agent watches a demonstration video,
remembers the arrangement of cubes, and rebuilds it around a pre-placed anchor
cube before pressing a stop button.
Contents
episodes.parquet — 500 train episodes with per-episode metadata (seeds,
difficulty, task semantics… See the full description on the dataset page: https://huggingface.co/datasets/Hiesh/robomme_sequencerecoveryhorizontally.cityscapes_sequence_1024by512PhaStyle-SequenceDB
Dataset Card for neuralbioinfo/PhaStyle-SequenceDB
phastyle Sequence Database
A collection of bacteriophage nucleotide sequences and metadata for training and evaluating phage lifestyle prediction models. Available splits support both strict-holdout and standard-holdout experiments.
Dataset Features
Name
Type
Description
sequence_id
int64
Unique integer identifier for each sequence
dataset
string
Source collection name (see “Splits” below)… See the full description on the dataset page: https://huggingface.co/datasets/neuralbioinfo/PhaStyle-SequenceDB.bacbench-operon-identification-protein-sequences
Dataset for operon identification in bacteria (Protein sequences)
A dataset of 4,073 operons across 11 bacterial genomes species.
The operon annotations have been extracted from Operon DB and the genome protein sequences have been extracted from GenBank. Each row contains a set of protein sequences present in the genome, represented
by a list of protein sequences from different contigs.
We extracted high-confidence (i.e. known) operons from Operon DB, filtered out non-contigous… See the full description on the dataset page: https://huggingface.co/datasets/macwiatrak/bacbench-operon-identification-protein-sequences.iemocap-embeddings-sequencesMintaka_Sequences_T5-xl-ssm
Dataset Card for "Mintaka_Sequences_T5-xl-ssm"
More Information needed
afdb_50_sequence_clustered_reprsCharades-Action-Sequence-Sampleyeast-tf-sequence-homology-pretokenized-NTphenotypic-trait-catalase-protein-sequences
Dataset for predicting Catalase phenotype from whole bacterial genomes (protein sequences)
A dataset of over 1k bacterial genomes across species with the Catalase as label. Catalase
denotes whether a bacterium produces the catalase enzyme that breaks down hydrogen peroxide (H₂O₂) into water and oxygen, thereby protecting the cell from oxidative stress.
Here, we provide binary Catalase labels, therefore the problem is a binary classification problem.
The genome protein sequences… See the full description on the dataset page: https://huggingface.co/datasets/macwiatrak/phenotypic-trait-catalase-protein-sequences.iemocap-embeddings-sequences-with-early-audioFine_Grained_Fandom_Benchmark_Action_Sequences
Codified Decision Tree (CDT) Action Sequences
This dataset contains scene-action pairs derived from storylines, used to train and evaluate role-playing (RP) agents using the Codified Decision Trees (CDT) framework.
Paper: Deriving Character Logic from Storyline as Codified Decision Trees
Repository: https://github.com/KomeijiForce/Codified_Decision_Tree
Introduction
Role-playing (RP) agents rely on behavioral profiles to act consistently across diverse narrative… See the full description on the dataset page: https://huggingface.co/datasets/KomeijiForce/Fine_Grained_Fandom_Benchmark_Action_Sequences.rpob_arch_dna_phylogeny_sequencesXES3G5M_interaction_sequences