Alternatives and similar repositories for UMIcountR

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

• chanwkimlab / MarcoPolo
  MarcoPolo is a clustering-free approach to the exploration of bimodally expressed genes along with group information in single-cell RNA-s…
  ☆20Updated 7 months ago
• markziemann / mitch
  An R package for multi-dimensional pathway enrichment analysis
  ☆16Updated 2 months ago
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆28Updated 3 years ago
• ConesaLab / acorde
  Isoform co-usage networks from single-cell RNA-seq data
  ☆16Updated last year
• Simon-Leonard / FlexDotPlot
  R package for Flexible dot plots
  ☆29Updated 3 years ago
• ebi-gene-expression-group / r-seurat-scripts
  Scripts to install as a Bioconda package for making workflows
  ☆18Updated 9 months ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 3 years ago
• crazyhottommy / scCustomize
  Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆16Updated 3 years ago
• myles-lewis / glmmSeq
  Gene-level general linear mixed model
  ☆22Updated 5 months ago
• adoostparast / CellR
  CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq
  ☆18Updated 4 years ago
• mardzix / bcd_nano_CUTnTag
  ☆11Updated last year
• janschleicher / tidesurf
  Tool for IDentification and Enumeration of Spliced and Unspliced Read Fragments
  ☆11Updated 3 months ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆25Updated last year
• aertslab / PUMATAC
  Pipeline for Universal Mapping of ATAC-seq
  ☆25Updated last year
• rnabioco / scraps
  Single-cell RNA Processing Software
  ☆11Updated last week
• BUStools / BUS_notebooks_R
  R vignettes for processing BUS format single-cell RNA-seq files
  ☆20Updated 5 years ago
• dbrg77 / ISSAAC-seq
  ☆17Updated 2 years ago
• rnabioco / djvdj
  An R package to analyze single-cell V(D)J data
  ☆28Updated last year
• jacobhepkema / scover
  scover
  ☆23Updated last year
• PoisonAlien / somaticfreq
  knowledge-based genotyping of cancer hotspots from the tumor BAM files
  ☆21Updated 3 years ago
• landau-lab / ONT-sc-splice
  Tools for detecting alternative splicing events and genotype in single-cell gene expression data.
  ☆14Updated last year
• PoolLab / ReferenceEnhancer
  ☆20Updated last year
• Core-Bioinformatics / bulkAnalyseR
  ☆28Updated last year
• Xinglab / rMATS-long
  ☆28Updated 6 months ago
• HCBravoLab / scTreeViz
  R/Bioconductor package to interactively explore single cell clusters at multiple resolutions
  ☆10Updated 3 years ago
• eudoraleer / scasa
  SCASA: Single cell transcript quantification tool
  ☆21Updated last year
• TheJacksonLaboratory / BRCA-LRseq-pipeline
  Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.
  ☆16Updated 3 years ago
• greenelab / miQC
  Flexible, probablistic metrics for quality control of scRNA-seq data
  ☆20Updated 2 years ago
• mikelove / zinbwave-deseq2
  Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq
  ☆31Updated 4 years ago
• ManchesterBioinference / IntegratingATAC-RNA-HiC
  scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
  ☆24Updated 2 years ago