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VISION
Signature Analysis and Visualization for Single-Cell RNA-seqCompass
In-Silico Modeling of Metabolic Heterogeneity using Single-Cell TranscriptomesCassiopeia
A Package for Cas9-Enabled Single Cell Lineage Tracing Tree ReconstructionHotspot
scone
scib-metrics
Accelerated, Python-only, single-cell integration benchmarking metricsImpulseDE2
FastProject
Dimensionality reduction for single cell RNA-seq datavelovi
mrvi_archive
Multi-resolution Variational InferenceSymSim
PopV
totalVI_reproducibility
TRAPeS
TCR Reconstruction Algorithm for Paired-End Single cellLineagePulse
Differential expression analysis for single-cell RNA-seq dataMPRAnalyze
Analyse enhancer strength based on MPRA experiments.compassR
An R library for conducting analyses on COMPASS data.epitome
Pipeline for predicting ChIP-seq peaks in novel cell types using chromatin accessibilityscRAD
Single-Cell Reproducibility Across DonorsImpulseDE
ImpulseDEBRAPeS
BCR reconstruction from short single cell RNA-seqRline
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
velovi_reproducibility
VIVS
Calibrated Identification of Feature Dependencies in Single-cell Multiomicstemporal_condition_shortest_walk
TcellSelectionTiming
scvi-tools-reproducibility
Reproducibility of results/figures from scvi-tools papercondition_connectivity_problems
Algorithms for connectivity problems in condition-varying protein networkstreedata
anndata with treesvisionpy
Functional interpretation of single cell similarity mapsThymus_CITE-seq
scvi-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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