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VISION
Signature Analysis and Visualization for Single-Cell RNA-seqCompass
In-Silico Modeling of Metabolic Heterogeneity using Single-Cell TranscriptomesHotspot
Cassiopeia
A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstructionscone
scib-metrics
Accelerated, Python-only, single-cell integration benchmarking metricsImpulseDE2
velovi
FastProject
Dimensionality reduction for single cell RNA-seq dataSymSim
PopV
mrvi_archive
Multi-resolution Variational InferencetotalVI_reproducibility
TRAPeS
TCR Reconstruction Algorithm for Paired-End Single cellLineagePulse
Differential expression analysis for single-cell RNA-seq datacompassR
An R library for conducting analyses on COMPASS data.MPRAnalyze
Analyse enhancer strength based on MPRA experiments.epitome
Pipeline for predicting ChIP-seq peaks in novel cell types using chromatin accessibilityImpulseDE
ImpulseDEscRAD
Single-Cell Reproducibility Across DonorsBRAPeS
BCR reconstruction from short single cell RNA-seqscvi-criticism
Evaluation metrics for scvi-tools modelsRline
R wrapper around the LINE algorithm for network embeddingmrvi
Multi-resolution Variational InferenceUMIpipe
A pipeline for processing UMI RNAseq datayoseflab.github.io
scVI-data
datasets for scVItheoretical_lineage_tracing_reproducibility
temporal_condition_shortest_walk
velovi_reproducibility
condition_connectivity_problems
Algorithms for connectivity problems in condition-varying protein networksVIVS
Calibrated Identification of Feature Dependencies in Single-cell MultiomicsThymus_CITE-seq
TcellSelectionTiming
treedata
anndata with treesvisionpy
Functional interpretation of single cell similarity mapsscvi-hub-references
Code for the pre-trained reference models uploaded to scvi-hub on HuggingFacescvi-tools-docker
Docker images for scvi-toolsCZI-Immuneaging
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