MrVI

Deep generative modeling of sample-level heterogeneity in single-cell genomics.

2026.06.0100

Nimbus

Automated classification of cellular expression in multiplexed imaging data with Nimbus.

2026.06.0100

META-SiM

Foundation model for efficient biological discovery in single-molecule time traces.

2026.06.0100

HippoMaps

HippoMaps: multiscale cartography of human hippocampal organization.

2026.06.0100

MMseqs2-GPU

GPU-accelerated homology search with MMseqs2.

2026.06.0100

OpenStructure

A fully automated benchmarking suite to compare macromolecular complexes.

2026.06.0100

Novae

Novae: a graph-based foundation model for spatial transcriptomics data.

2026.06.0100

CellSAM

CellSAM: a foundation model for cell segmentation.

2026.06.0100

DISK

Deep Imputation for Skeleton data (DISK) for behavioral science.

2026.06.0100

3D-SARS2

A 3D structural SARS-CoV-2-human interactome to explore genetic and drug perturbations.

2026.05.2320

CellRank

CellRank for directed single-cell fate mapping.

2026.05.2300

UMIcountR

Molecular spikes: a gold standard for single-cell RNA counting.

2026.05.2300

ScanNet

ScanNet: an interpretable geometric deep learning model for structure-based protein binding site prediction.

2026.05.2300

ColabFold

ColabFold: making protein folding accessible to all.

2026.05.2300

C-SIDE

Cell type-specific inference of differential expression in spatial transcriptomics.

2026.05.2300

DEDAL

Deep embedding and alignment of protein sequences.

2026.05.2100

LocMoFit

Maximum-likelihood model fitting for quantitative analysis of SMLM data.

2026.05.2100

TemplateFlow

TemplateFlow: FAIR-sharing of multi-scale, multi-species brain models.

2026.05.2100

AutoLFADS

A large-scale neural network training framework for generalized estimation of single-trial population dynamics.

2026.05.2100

RS-FISH

RS-FISH: precise, interactive, fast, and scalable FISH spot detection.

2026.05.2100

m6Anet

Detection of m6A from direct RNA sequencing using a multiple instance learning framework.

2026.05.2100

Cellpose 2.0

Cellpose 2.0: how to train your own model.

2026.05.2100

UTAG

Unsupervised discovery of tissue architecture in multiplexed imaging.

2026.05.2100

COMMOT

Screening cell-cell communication in spatial transcriptomics via collective optimal transport.

2026.05.2100

DeePiCt

Convolutional networks for supervised mining of molecular patterns within cellular context.

2026.05.2100

RPVG

Haplotype-aware pantranscriptome analyses using spliced pangenome graphs.

2026.05.2100

MARIO

Robust single-cell matching and multimodal analysis using shared and distinct features.

2026.05.2100

Jasmine and Iris

Jasmine and Iris: population-scale structural variant comparison and analysis.

2026.05.2100

NSF

Nonnegative spatial factorization applied to spatial genomics.

2026.05.2100

ERnet

ERnet: a tool for the semantic segmentation and quantitative analysis of endoplasmic reticulum topology.

2026.05.2100

DeepVID

High-speed low-light in vivo two-photon voltage imaging of large neuronal populations.

2026.05.2100

Cue

Cue: a deep-learning framework for structural variant discovery and genotyping.

2026.05.2100

FD-DeepLoc

Field-dependent deep learning enables high-throughput whole-cell 3D super-resolution imaging.

2026.05.2100

outbreak.info

Outbreak.info genomic reports: scalable and dynamic surveillance of SARS-CoV-2 variants and mutations.

2026.05.2100

SODB

Spatial Omics DataBase (SODB): increasing accessibility to spatial omics data.

2026.05.2100

SODB

SODB facilitates comprehensive exploration of spatial omics data.

2026.05.2100

3DFlex

3DFlex: determining structure and motion of flexible proteins from cryo-EM.

2026.05.2100

EmbryoNet

EmbryoNet: using deep learning to link embryonic phenotypes to signaling pathways.

2026.05.2100

BigNeuron

BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets.

2026.05.2100

CD-CODE

CD-CODE: crowdsourcing condensate database and encyclopedia.

2026.05.2100