Alternatives and similar repositories for LineageOT:

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

• jessica1338 / LinTIMaT
  Lineage Tracing by Integrating Mutation and Transcriptomic data
  ☆12Updated 4 years ago
• matsengrp / gapml
  ☆11Updated 3 years ago
• dpeerlab / scKINETICS
  Code for scKINETICS (ISMB 2023)
  ☆21Updated last year
• cbg-ethz / scIsoPrep
  Single-cell Iso Prep
  ☆14Updated last year
• landau-lab / PATH
  ☆16Updated 5 months ago
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆19Updated last year
• AllonKleinLab / PBA
  Population balance analysis
  ☆44Updated 5 years ago
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆27Updated last year
• soedinglab / prosstt
  PRObabilistic Simulations of ScRNA-seq Tree-like Topologies
  ☆26Updated last year
• caravagnalab / congas
  A set of Pyro models and functions to infer CNA from scRNA-seq data
  ☆11Updated last year
• soedinglab / merlot
  Reconstruct the lineage topology of a scRNA-seq differentiation dataset.
  ☆18Updated 4 years ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated last month
• khalilouardini / treeVAE-reproducibility
  Reproducing the experiments in the paper
  ☆10Updated 3 years ago
• mattjones315 / KPTracer-release
  Code & utilities for the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"
  ☆11Updated last year
• pachterlab / CGCCP_2023
  scVI extension for unspliced RNA
  ☆16Updated last week
• dylkot / pyWNN
  Weighted Nearest Neighbors Analysis implemented in Python (pyWNN)
  ☆12Updated 3 years ago
• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆25Updated 4 months ago
• cliffzhou92 / MuTrans-release
  ☆14Updated 3 years ago
• dbrg77 / scATAC_snakemake
  Snakemake pipeline for plate scATAC-seq processing
  ☆26Updated last year
• federicobocci / spliceJAC
  ☆10Updated 2 years ago
• 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
• viannegao / ChromaFold
  ☆22Updated 3 months ago
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆18Updated 4 years ago
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆24Updated 2 years ago
• ma-compbio / Fast-Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition
  ☆18Updated last year
• CostaLab / scopen
  scOpen: single-cell open chromatin analysis via NMF modelling
  ☆25Updated last year
• josephreplogle / guide_calling
  Tools for sgRNA calling in direct capture Perturb-seq data
  ☆31Updated last year
• wenweixiong / MARVEL
  ☆44Updated 5 months ago
• UPSUTER / GEMLI
  ☆29Updated last week
• lingfeiwang / normalisr
  Causal inference, differential expression, and co-expression for scRNA-seq
  ☆18Updated 3 years ago