Alternatives and similar repositories for scquint

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

• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆35Updated 3 years ago
• qqwang-berkeley / JUM
  A tool for annotation-free differential analysis of tissue-specific pre-mRNA alternative splicing patterns
  ☆29Updated 2 years ago
• salzman-lab / SICILIAN
  ☆23Updated last year
• hemberg-lab / MicroExonator
  Snakemake pipeline for microexon discovery and quantification
  ☆20Updated 9 months ago
• 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
• landau-lab / ONT-sc-splice
  Tools for detecting alternative splicing events and genotype in single-cell gene expression data.
  ☆15Updated last year
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated 2 years ago
• fmicompbio / monaLisa
  binned motif enrichment analysis and visualisation
  ☆41Updated last month
• HorvathLab / NGS
  Next-Gen Sequencing tools from the Horvath Lab
  ☆44Updated last month
• jacobhepkema / scover
  scover
  ☆24Updated last year
• lareaulab / psix
  ☆16Updated last year
• wenweixiong / MARVEL
  ☆51Updated last year
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆30Updated 7 months ago
• theislab / hadge
  Comprehensive pipeline for donor demultiplexing in single cell
  ☆24Updated this week
• ConesaLab / acorde
  Isoform co-usage networks from single-cell RNA-seq data
  ☆16Updated last year
• caleblareau / mitoblacklist
  Repo for generating custom blacklist for reads originating from mitochondrial DNA to nuclear genome
  ☆22Updated 3 years ago
• eudoraleer / scasa
  SCASA: Single cell transcript quantification tool
  ☆22Updated last year
• oicr-gsi / sequenza
  Workflow for Sequenza, cellularity and ploidy
  ☆22Updated 2 months ago
• PoolLab / ReferenceEnhancer
  ☆20Updated 2 years ago
• aertslab / PUMATAC
  Pipeline for Universal Mapping of ATAC-seq
  ☆25Updated last month
• JSB-UCLA / scReadSim
  A single cell sequencing read simulator.
  ☆33Updated last year
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆37Updated last month
• homeveg / nuctools
  software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data
  ☆17Updated 5 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• ETH-NEXUS / scAmpi_single_cell_RNA
  Code related to scRNA analysis using the scAmpi workflow
  ☆27Updated 4 months ago
• asoltis / MutEnricher
  Somatic coding and non-coding mutation enrichment analysis for tumor WGS data
  ☆12Updated 4 years ago
• mcvickerlab / varCA
  Use an ensemble of variant callers to call variants from ATAC-seq data
  ☆23Updated 5 months ago
• ans4013 / ScisorWiz
  ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data
  ☆17Updated last year
• OscarGVelasco / LotsOfCells
  R package for analysing meaningful differences in the numbers of cell populations from single-cell phenotypic data
  ☆22Updated 2 weeks ago
• Papatheodorou-Group / CATD_snakemake
  Snakemake pipeline for benchmarking cell-type deconvolution methods and deconvolving real bulk RNA-seq data with the use of scRNA-seq dat…
  ☆15Updated 5 months ago