Alternatives and similar repositories for harissa

Users that are interested in harissa are comparing it to the libraries listed below

• AllonKleinLab / PBA
  Population balance analysis
  ☆44Updated 6 years ago
• Tchanders / NetworkInference.jl
  Methods for inferring undirected networks from data
  ☆45Updated 4 years ago
• maclean-lab / RVAgene
  Recurrent Variational Auto gene encoder
  ☆20Updated 2 years ago
• swoodhouse / SCNS-Toolkit
  Single cell network synthesis toolkit
  ☆23Updated 4 years ago
• berenslab / umi-normalization
  Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…
  ☆40Updated 3 years ago
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆40Updated 7 years ago
• vahuynh / dynGENIE3
  Semi-parametric approach for the inference of gene regulatory networks from time series of expression data
  ☆26Updated 5 months ago
• Teichlab / MultiMAP
  MultiMAP for integration of single cell multi-omics
  ☆56Updated 2 years ago
• jmbreda / Sanity
  Filtering of Poison noise on a single-cell RNA-seq UMI count matrix
  ☆78Updated 6 months ago
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆77Updated 2 months ago
• simslab / scHPF
  Single-cell Hierarchical Poisson Factorization
  ☆73Updated 3 years ago
• cbg-ethz / scDEF
  Deep exponential families for single-cell data.
  ☆20Updated last month
• praneet1988 / Inferring-and-Visualizing-RNA-Velocity-in-Bulk-RNA-SEQ
  Analysis steps to calculate RNA Velocity in Bulk RNA-Seq samples. Step by Step Guide.
  ☆17Updated 5 years ago
• Tchanders / network_inference_tutorials
  ☆31Updated 6 years ago
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆36Updated last month
• gdurif / pCMF
  pCMF R package
  ☆14Updated 6 years ago
• cailab-tamu / scTenifoldNet
  A R/MATLAB package to construct and compare gene regulatory networks from single-cell transcriptomic data
  ☆24Updated 10 months ago
• yanailab / knn-smoothing
  K-nearest neighbor smoothing for high-throughput single-cell RNA-Seq data
  ☆59Updated 3 years ago
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆93Updated last year
• FertigLab / CoGAPS
  Bayesian MCMC matrix factorization algorithm
  ☆70Updated 2 months ago
• YosefLab / Cassiopeia
  A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction
  ☆96Updated last week
• jessica1338 / CSHMM-for-time-series-scRNA-Seq
  This is the code release for paper Continuous State HMMs for Modeling Time Series Single Cell RNA-Seq Data
  ☆22Updated 7 years ago
• cbg-ethz / dce
  Finding the causality in biological pathways
  ☆13Updated 2 years ago
• saezlab / dorothea-py
  Dorothea package in Python
  ☆11Updated 3 years ago
• dynverse / dyngen
  Simulating single-cell data using gene regulatory networks 📠
  ☆77Updated last year
• jessemzhang / tn_test
  post-clustering differential expression test
  ☆36Updated 6 years ago
• JSB-UCLA / scDesign2
  An interpretable simulator that generates realistic single-cell gene expression count data with gene correlations recapitulated
  ☆25Updated last year
• calico / velodyn
  Dynamical systems methods for RNA velocity analysis
  ☆24Updated 4 years ago
• bioFAM / slalom
  ☆29Updated 2 years ago