Alternatives and similar repositories for scChromHMM:

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

• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆31Updated 3 years ago
• jacobhepkema / scover
  scover
  ☆23Updated last year
• ebi-gene-expression-group / r-seurat-scripts
  Scripts to install as a Bioconda package for making workflows
  ☆18Updated 5 months ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆27Updated 2 years ago
• wenweixiong / MARVEL
  ☆45Updated 6 months ago
• Mayrlab / scUTRquant
  Bioinformatics pipeline for single-cell 3' UTR isoform quantification
  ☆18Updated 2 months ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆28Updated 6 months ago
• ncbi / scPopCorn
  A python tool to do comparative analysis of mulitple single cell datasets.
  ☆21Updated 5 years ago
• hemberg-lab / MicroExonator
  Snakemake pipeline for microexon discovery and quantification
  ☆20Updated 3 weeks ago
• caleblareau / mitoblacklist
  Repo for generating custom blacklist for reads originating from mitochondrial DNA to nuclear genome
  ☆19Updated 2 years ago
• aertslab / PUMATAC
  Pipeline for Universal Mapping of ATAC-seq
  ☆24Updated 9 months ago
• cziegenhain / UMIcountR
  ☆16Updated 2 years ago
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆28Updated 4 years ago
• crazyhottommy / scATACutils
  R/Bioconductor package for working with 10x scATACseq data
  ☆38Updated last year
• HelenaLC / muscat-comparison
  ☆12Updated 9 months ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 3 years ago
• PoolLab / generecovery
  ☆29Updated last year
• mikelove / zinbwave-deseq2
  Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq
  ☆31Updated 4 years ago
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• theislab / hadge
  Comprehensive pipeline for donor demultiplexing in single cell
  ☆24Updated 8 months ago
• Vivianstats / scLink
  Inferring gene co-expression networks from single cell gene expression data
  ☆24Updated 2 years ago
• csoneson / rna_velocity_quant
  Evaluation of the effect of quantification choices on RNA velocity estimates
  ☆27Updated 3 years ago
• yuifu / millefy
  Millefy: Genome browser-like visualization of single-cell RNA-seq dataset
  ☆28Updated 5 years ago
• liulab-dfci / lisa
  epigenome analysis to rank transcription factors
  ☆13Updated 5 years ago
• lhe17 / nebula
  ☆35Updated 11 months ago
• GWW / scsnv
  scSNV Mapping tool for 10X Single Cell Data
  ☆24Updated 10 months ago
• PoolLab / ReferenceEnhancer
  ☆20Updated last year
• adoostparast / CellR
  CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq
  ☆15Updated 3 years ago
• BradBalderson / Cytocipher
  Analysis methods for analysing single cell RNA-seq data; particularly with the goal of checking if tentative clusters of cells are signif…
  ☆35Updated last year