Alternatives and similar repositories for PENCIL

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

• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆67Updated last year
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated 2 months ago
• lanagarmire / Asgard
  ☆44Updated last year
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆97Updated 11 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆50Updated 7 months ago
• xiaoyeye / TFvelo
  ☆46Updated last year
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆71Updated 2 years ago
• WanluLiuLab / scAtlasVAE
  ☆40Updated 5 months ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆41Updated 11 months ago
• mcgilldinglab / scSemiProfiler
  A computational method scSemiProfiler that provides affordable single-cell data for large-scale disease cohorts using deep generative mod…
  ☆25Updated 6 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆66Updated 5 months ago
• snehamitra / SCARlink
  ☆59Updated this week
• LiQian-XC / sctour
  A deep learning architecture for robust inference and accurate prediction of cellular dynamics
  ☆70Updated 4 months ago
• beyondpie / CEMBA_wmb_snATAC
  Whole mouse brain snATAC seq analysis
  ☆27Updated 7 months ago
• genecell / COSG
  Accurate and fast cell marker gene identification with COSG
  ☆53Updated last month
• yunguan-wang / SPROD
  SPROD: Spatial expression profiling de-noising
  ☆36Updated 2 years ago
• Roy-lab / scMTNI
  ☆30Updated 4 months ago
• KlugerLab / GeneTrajectory-python
  Python implementation of Gene Trajectory
  ☆30Updated last year
• settylab / Mellon
  Non-parametric density inference for single-cell analysis.
  ☆74Updated 6 months ago
• madilabcode / scNET
  ☆58Updated 2 months ago
• AllonKleinLab / paper-data
  ☆21Updated 2 months ago
• Durenlab / LINGER
  ☆119Updated 6 months ago
• mcgilldinglab / UNAGI
  UNAGI: deep generative AI for virtual disease and unsuperivsed in-silico perturbations.
  ☆45Updated this week
• datapplab / AutoClass
  ☆43Updated 3 years ago
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆35Updated 3 months ago
• ZJUFanLab / scSpace
  an integrative algorithm to distinguish spatially variable cell subclusters by reconstructing cells onto a pseudo space with spatial tran…
  ☆23Updated 2 years ago
• RegnerM2015 / scBreast_scRNA_scATAC_2024
  Repository to store code used for the analyses presented in "Defining the Regulatory Logic of Breast Cancer Using Single-Cell Epigenetic …
  ☆19Updated 6 months ago
• jiang-junyao / IReNA
  R package IReNA
  ☆28Updated last year
• gabrielakinker / CCLE_heterogeneity
  ☆61Updated last year
• bowang-lab / DeepVelo
  ☆46Updated last year