Alternatives and similar repositories for greatpy:

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

• songlab-cal / scquint
  ☆16Updated 9 months ago
• ma-compbio / Fast-Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition
  ☆19Updated last year
• gxiaolab / scAllele
  ☆32Updated 10 months ago
• jaymahat / scGROseq
  scGRO-seq analyses codes
  ☆11Updated last year
• EraslanBas / PerturbDecode
  An end-to-end computational pipeline for large Perturb-seq screens
  ☆13Updated 2 years ago
• CostaLab / scopen
  scOpen: single-cell open chromatin analysis via NMF modelling
  ☆26Updated 2 years ago
• theislab / mubind
  Learning motif contributions to cell transitions using sequence features and graphs.
  ☆28Updated 6 months ago
• PoolLab / ReferenceEnhancer
  ☆20Updated last year
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated 2 months ago
• dbrg77 / scATAC_snakemake
  Snakemake pipeline for plate scATAC-seq processing
  ☆26Updated last year
• SchulzLab / STARE
  TF analysis from epigenetic and Hi-C data
  ☆17Updated last week
• Teichlab / snp2cell
  cell type specific, trait-associated gene regulation
  ☆20Updated last week
• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆32Updated 3 years ago
• aertslab / PUMATAC
  Pipeline for Universal Mapping of ATAC-seq
  ☆25Updated 10 months ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆39Updated last year
• GreenleafLab / ChrAccR
  Analyzing chromatin accessibility data in R
  ☆18Updated last year
• wenweixiong / MARVEL
  ☆45Updated 7 months ago
• JSB-UCLA / Clipper
  A p-value-free method for controlling false discovery rates in high-throughput biological data with two conditions
  ☆39Updated 2 years ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆25Updated last year
• theislab / hadge
  Comprehensive pipeline for donor demultiplexing in single cell
  ☆24Updated 9 months ago
• kostkalab / vaeda
  Vaeda method for computational doublet annotation
  ☆16Updated 8 months ago
• DeplanckeLab / ChromatinHD
  High-definition modeling of chromatin + transcriptomics data
  ☆22Updated 4 months ago
• bernardo-de-almeida / motif-clustering
  Clustering TF motif models from multiple species (mostly focused on Drosophila and human) by similarity to remove redundancy
  ☆26Updated 2 years ago
• lcmmichielsen / scHPL
  ☆35Updated last week
• cole-trapnell-lab / pseudospace
  ☆12Updated 5 years ago
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆27Updated last year
• csglab / GEDI
  Gene Expression Decomposition and Integration
  ☆17Updated 3 weeks ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆38Updated 2 months ago
• Mayrlab / scUTRquant
  Bioinformatics pipeline for single-cell 3' UTR isoform quantification
  ☆21Updated 3 months ago
• ans4013 / ScisorWiz
  ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data
  ☆15Updated 10 months ago