Alternatives and similar repositories for scTE

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

• fl-yu / CUT-RUNTools-2.0
  CUT&RUN and CUT&Tag data processing and analysis
  ☆113Updated 10 months ago
• KChen-lab / Monopogen
  SNV calling from single cell sequencing
  ☆118Updated last year
• cellgeni / STARsolo
  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
  ☆75Updated 7 months ago
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆92Updated last year
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆83Updated 2 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• MGI-tech-bioinformatics / DNBelab_C_Series_HT_scRNA-analysis-software
  The official pipeline for flexible and high-performance analysis of DNBelab C Serie single-cell data.
  ☆129Updated this week
• TheHumphreysLab / plot1cell
  ☆120Updated 4 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆216Updated last year
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆155Updated 2 months ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆94Updated 5 years ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆191Updated 2 months ago
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆92Updated 2 years ago
• AntonioDeFalco / SCEVAN
  R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the …
  ☆120Updated last month
• rpolicastro / scProportionTest
  ☆74Updated 2 years ago
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆62Updated 4 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆140Updated 4 years ago
• kharchenkolab / numbat
  Haplotype-aware CNV analysis from single-cell RNA-seq
  ☆201Updated 2 months ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆185Updated last year
• cxzhu / Paired-Tag
  Analysis of Paired-Tag datasets
  ☆43Updated last year
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆152Updated 3 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆180Updated last year
• jcao89757 / SCINA
  SCINA: A Semi-Supervised Subtyping Algorithm of Single Cells and Bulk Samples
  ☆73Updated 4 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆98Updated 2 years ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆109Updated 11 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆126Updated 8 months ago
• atarashansky / SAMap
  SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.
  ☆87Updated 2 weeks ago
• huayc09 / SeuratExtend
  ☆199Updated last month
• chuiqin / irGSEA
  The integration of single cell rank-based gene set enrichment analysis
  ☆142Updated 6 months ago
• tallulandrews / scRNASeqPipeline
  ☆118Updated 7 years ago