Alternatives and similar repositories for clonealign

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

• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 6 years ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆46Updated last year
• rargelaguet / scnmt_gastrulation
  scNMT-seq gastrulation
  ☆42Updated 2 years ago
• pachterlab / NYMP_2018
  ☆28Updated 6 years ago
• bioFAM / slalom
  ☆29Updated 2 years ago
• Neurosurgery-Brain-Tumor-Center-DiazLab / CONICS
  CONICS: COpy-Number analysis In single-Cell RNA-Sequencing
  ☆74Updated 2 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆31Updated 3 years ago
• markrobinsonuzh / scRNAseq_clustering_comparison
  A study to compare methods for clustering of scRNA-seq data
  ☆43Updated last year
• GreenleafLab / chromVARmotifs
  R package with motifs for use with chromVAR
  ☆28Updated 7 years ago
• cole-trapnell-lab / cicero-release
  ☆58Updated 11 months ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆54Updated 4 years ago
• lanagarmire / SSrGE
  ☆34Updated 6 years ago
• SpatialTranscriptomicsResearch / std-nb
  Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
  ☆22Updated 6 years ago
• jdime / scRNAseq_cell_cluster_labeling
  Scripts to run and benchmark scRNA-seq cell cluster labeling methods
  ☆48Updated 5 years ago
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆40Updated 6 years ago
• JEFworks / MUDAN
  Multi-sample Unified Discriminant ANalysis
  ☆73Updated 2 years ago
• willtownes / scrna2019
  supporting code for the multinomial single cell RNA-Seq paper
  ☆52Updated 4 years ago
• BUStools / BUS_notebooks_python
  ☆23Updated 6 years ago
• morrislab / TrackSig
  A framework to infer mutational signatures in cancer over time
  ☆55Updated 6 years ago
• r3fang / snATAC
  <<------ Use SnapATAC!!
  ☆25Updated 6 years ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆51Updated 2 years ago
• seasoncloud / Alleloscope
  Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separ…
  ☆29Updated 2 years ago
• single-cell-genetics / cardelino
  Clone identification from single-cell data
  ☆61Updated 2 years ago
• icbi-lab / immune_deconvolution_benchmark
  Reproducible pipeline for "Comprehensive evaluation of cell-type quantification methods for immuno-oncology", Sturm et al. 2019, https://…
  ☆43Updated 5 years ago
• qinqian / lisa
  epigenome analysis to rank transcription factors
  ☆30Updated 2 years ago
• WeiqiangZhou / BIRD
  Big data Regression for predicting DNase I hypersensitivity
  ☆30Updated 11 months ago
• JEFworks / liger
  Lightweight Iterative Gene set Enrichment in R
  ☆57Updated 10 months ago
• arnavm / multimodal-scRNA-seq
  Figure depicting the breadth of multimodal scRNA-seq technologies
  ☆16Updated 6 years ago
• csoneson / rna_velocity_quant
  Evaluation of the effect of quantification choices on RNA velocity estimates
  ☆27Updated 3 years ago
• LuyiTian / scPipe
  a pipeline for single cell RNA-seq data analysis
  ☆69Updated last year