churchill-lab / scRATE

Related projects ⓘ

Alternatives and complementary repositories for scRATE

• wgmao / NIFA
  Non-negative Independent Factor Analysis for single cell RNA-seq
  ☆11Updated 2 years ago
• linnarsson-lab / cytograph
  Algorithms for single-cell analysis
  ☆29Updated 3 years ago
• yanailab / enhance
  ENHANCE: Accurate denoising of single-cell RNA-Seq data (Python implementation)
  ☆13Updated 5 years ago
• igrabski / scRNAseq-cell-type
  Probabilistic gene expression barcodes for cell type annotation
  ☆25Updated 2 years ago
• LTLA / scRNAseq
  Clone of the Bioconductor repository for the scRNAseq package.
  ☆24Updated 5 months ago
• jingshuw / descend
  ☆16Updated 3 years ago
• liulab-dfci / lisa
  epigenome analysis to rank transcription factors
  ☆13Updated 4 years ago
• kstreet13 / scry
  Collection of analysis methods for small count data generated by rafalab members (the methods, not the data).
  ☆19Updated 4 months ago
• debsin / dropClust
  Version 2.1.0 released
  ☆23Updated 5 years ago
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆18Updated 4 years ago
• pachterlab / kite
  kallisto index tag extractor
  ☆20Updated 5 years ago
• BaderLab / AgingMouseBrainCCInx
  Predicted cell-cell interactions of the aging mouse brain
  ☆19Updated 5 years ago
• Novartis / granulator
  ☆11Updated 3 years ago
• mikelove / zinbwave-deseq2
  Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq
  ☆30Updated 3 years ago
• jgamache014 / snRNA-seq-workflow
  Human brain, >200,000 nuclei
  ☆24Updated 3 years ago
• KChen-lab / SCMER
  Marker Selection by matching manifolds and elastic net
  ☆23Updated last month
• epigen / scifiRNA-seq_publication
  The million-scale method for single-cell analysis
  ☆10Updated last year
• Pinlyu3 / CellAnn_shinyapp
  CellAnn
  ☆12Updated last year
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆24Updated 3 years ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆24Updated 10 months ago
• caleblareau / immune_cell_signature_genes
  Repository for signature genes from Immune Cell Atlas
  ☆18Updated 5 years ago
• BUStools / BUS_notebooks_R
  R vignettes for processing BUS format single-cell RNA-seq files
  ☆20Updated 4 years ago
• tengfei-emory / scBatch
  Batch Effect Correction of RNA-seq Data through Sample Distance Matrix Adjustment
  ☆17Updated 3 years ago
• stephaniehicks / methylCC
  R/BioC package to estimate the cell composition of whole blood in DNA methylation samples in microarray or sequencing platforms
  ☆19Updated 2 years ago
• Simon-Leonard / FlexDotPlot
  R package for Flexible dot plots
  ☆26Updated 2 years ago
• mm-shah / MetaNeighbor
  A method to rapidly assess cell type identity using both functional and random gene sets
  ☆14Updated 5 years ago
• churchill-lab / scBASE
  A set of tools for accurate quantitation of single-cell allele-specific expression
  ☆12Updated last year
• GregorySchwartz / tooManyCellsR
  An R wrapper for too-many-cells, for clustering single cells and analyzing cell clade relationships with colorful visualizations.
  ☆25Updated 4 years ago
• HelenaLC / simulation-comparison
  Snakemake workflow to benchmark scRNA-seq data simulators
  ☆13Updated 2 years ago
• raphael-group / netNMF-sc
  netNMF-sc: A network regularization algorithm for dimensionality reduction and imputation of single-cell expression data
  ☆22Updated 3 years ago