| Modular, efficient and constant-memory single-cell RNA-seq preprocessing P Melsted, AS Booeshaghi, L Liu, F Gao, L Lu, KH Min, ... Nature biotechnology 39 (7), 813-818, 2021 | 258 | 2021 |
| Mapping transcriptomic vector fields of single cells X Qiu, Y Zhang, JD Martin-Rufino, C Weng, S Hosseinzadeh, D Yang, ... Cell 185 (4), 690-711. e45, 2022 | 195 | 2022 |
| Lineage tracing reveals the phylodynamics, plasticity, and paths of tumor evolution D Yang, MG Jones, S Naranjo, WM Rideout, KHJ Min, R Ho, W Wu, ... Cell 185 (11), 1905-1923. e25, 2022 | 123 | 2022 |
| Metadata retrieval from sequence databases with ffq Á Gálvez-Merchán, KH Min, L Pachter, AS Booeshaghi Bioinformatics 39 (1), btac667, 2023 | 18 | 2023 |
| Inferring gene regulation from stochastic transcriptional variation across single cells at steady state A Gupta, JD Martin-Rufino, TR Jones, V Subramanian, X Qiu, EI Grody, ... Proceedings of the National Academy of Sciences 119 (34), e2207392119, 2022 | 18 | 2022 |
| Spateo: multidimensional spatiotemporal modeling of single-cell spatial transcriptomics X Qiu, DY Zhu, J Yao, Z Jing, L Zuo, M Wang, KH Min, H Pan, S Wang, ... BioRxiv, 2022.12. 07.519417, 2022 | 11 | 2022 |
| Lineage recording reveals the phylodynamics, plasticity and paths of tumor evolution D Yang, MG Jones, S Naranjo, WM Rideout III, KH Min, R Ho, W Wu, ... bioRxiv, 2021.10. 12.464111, 2021 | 8 | 2021 |
| Low-cost, scalable, and automated fluid sampling for fluidics applications AS Booeshaghi, YA Kil, KHJ Min, J Gehring, L Pachter HardwareX 10, e00201, 2021 | 8 | 2021 |
| kallisto, bustools, and kb-python for quantifying bulk, single-cell, and single-nucleus RNA-seq DK Sullivan, KHJ Min, KE Hjörleifsson, L Luebbert, G Holley, L Moses, ... bioRxiv, 2023 | 6 | 2023 |
| Quantifying orthogonal barcodes for sequence census assays AS Booeshaghi, KH Min, J Gehring, L Pachter Bioinformatics Advances 4 (1), vbad181, 2024 | 5 | 2024 |
| Metadata retrieval from genomics database with ffq Á Gálvez-Merchán, KH Min, L Pachter, AS Booeshaghi bioRxiv, 2022 | 1 | 2022 |
| Dynast: Inclusive and efficient quantification of metabolically labeled transcripts in single cells KHJ Min Massachusetts Institute of Technology, 2022 | | 2022 |
| Assembly Instructions for colosseum S Booeshaghi, Y Kil, KH Min, J Gehring, L Pachter | | 2021 |
