metadata
license: mit
task_categories:
- text-generation
tags:
- protein-sequence-generation
- bioinformatics
- pfam
- ancestral-sequence-reconstruction
- protein-family
LineageFlow Pfam Assets
This dataset contains the preprocessed Pfam assets used by the released LineageFlow inference pipeline, as presented in the paper LineageFlow: Flow Matching for High-Fidelity Family-Aware Protein Sequence Generation.
Resources:
Contents
pfam_priors_asr_mad/: family-specific ASR Dirichlet priors.pfam_gap_rates/: family-specific alignment gap statistics.pfam_fastas_clean/: cleaned Pfam family alignments.pfam_pi_smooth_tau0.5_gap060_gt80_020.csv: family sampling distribution.pfam_priors_keep_ids_gap060_gt80_020.txt: family keep list used by the default sampler.
Usage
You can download the preprocessed Pfam assets using the Hugging Face CLI:
hf download jinxbye/LineageFlow-assets \
--repo-type dataset \
--local-dir dataset
The inference scripts in the GitHub repository expect these assets under dataset/ by default. All paths can be overridden from the command line.
Citation
@inproceedings{liang2026lineageflow,
title = {LineageFlow: Flow Matching for High-Fidelity Family-Aware Protein Sequence Generation},
author = {Liang, Langzhang and Yang, Ming and Feng, Yi and Li, Junfan and Pan, Shirui and Xu, Yinghui and Ying, Tianlei and Zheng, Yizhen and Xu, Zenglin},
booktitle = {Proceedings of the 43rd International Conference on Machine Learning},
year = {2026}
}
Notes
These files are preprocessed from Pfam family alignments. Please follow the license and usage terms of the original Pfam resource when using the data.