gedi2
Gene Expression Decomposition and Integration
A memory-efficient implementation for integrating gene expression data from single-cell RNA sequencing experiments. Uses a C++ backend with thin R wrappers to enable analysis of large-scale single-cell datasets. The package supports multiple data modalities including count matrices, paired data (splicing, RNA velocity, CITE-seq), and binary indicators. It implements a latent variable model with block coordinate descent optimization for dimensionality reduction and batch effect correction. Core algorithms are described in Madrigal et al. (2024) <doi:10.1038/s41467-024-50963-0>.
Versions across snapshots
| Version | Repository | File | Size |
|---|---|---|---|
2.3.4 |
rolling linux/jammy R-4.5 | gedi2_2.3.4.tar.gz |
671.9 KiB |
2.3.4 |
rolling linux/noble R-4.5 | gedi2_2.3.4.tar.gz |
687.1 KiB |
2.3.4 |
rolling source/ R- | gedi2_2.3.4.tar.gz |
111.8 KiB |
2.3.4 |
latest linux/jammy R-4.5 | gedi2_2.3.4.tar.gz |
671.9 KiB |
2.3.4 |
latest linux/noble R-4.5 | gedi2_2.3.4.tar.gz |
687.1 KiB |
2.3.4 |
latest source/ R- | gedi2_2.3.4.tar.gz |
111.8 KiB |
2.3.4 |
2026-04-23 source/ R- | gedi2_2.3.4.tar.gz |
0 B |