Alternatives and similar repositories for HiC-Reg

Users that are interested in HiC-Reg are comparing it to the libraries listed below

• ma-compbio / CTCF-MP
  ☆12Updated 4 years ago
• liulab-dfci / lisa
  epigenome analysis to rank transcription factors
  ☆13Updated 5 years ago
• khodosevichlab / CellAnnotatoR
  Automated marker-based annotation of cell types
  ☆13Updated 3 years ago
• tianshilu / QBRC-Neoantigen-Pipeline
  QBRC Neoantigen calling pipeline with CSiN calculation embedded
  ☆24Updated 3 years ago
• SpatialTranscriptomicsResearch / std-nb
  Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
  ☆22Updated 6 years ago
• kjgaulton / pipelines
  Analytical tools and pipelines for bulk and single cell epigenomic and human genetic data
  ☆27Updated 4 years ago
• huishenlab / compartmap
  Reconstruction of higher order chromatin from scRNA-seq and scATAC-seq
  ☆14Updated last week
• klarman-cell-observatory / perturbseq
  Perturb-seq analysis package
  ☆15Updated last year
• FunctionLab / sei-manuscript
  Code for reproducing the Sei manuscript results
  ☆17Updated 3 years ago
• lhqing / mouse_brain_2020
  Jupyter notebook repository for reproducing analysis in "DNA Methylation Landscape of the Mouse Brain at Single-Cell Resolution"
  ☆14Updated 5 years ago
• pablo-gar / somatic_mutations_GTEx
  Methods and analysis for Garcia-Nieto, et al. Somatic mutations
  ☆16Updated 5 years ago
• SchulzLab / STARE
  TF analysis from epigenetic and Hi-C data
  ☆18Updated 6 months ago
• lhqing / ALLCools
  Toolkit for single-cell DNA methylation analysis.
  ☆43Updated 2 weeks ago
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆29Updated 4 years ago
• XueyiDong / LongReadBenchmark
  Benchmarking long-read RNA-seq analysis tools
  ☆27Updated 8 months ago
• dibbelab / gficf
  An R implementation of the Gene Frequency - Inverse Cell Frequency method for single cell data normalization
  ☆15Updated 3 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated 11 months ago
• hemberg-lab / MicroExonator
  Snakemake pipeline for microexon discovery and quantification
  ☆20Updated 9 months ago
• broadinstitute / single_cell_classification
  Methods to use SNPs or gene expression to classify single cell RNAseq to reference profiles
  ☆29Updated 5 years ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆46Updated last year
• sinanugur / cellsnake
  Cellsnake tool main repo
  ☆35Updated last year
• hartwigmedical / scripts
  ☆21Updated this week
• aertslab / GENIE3
  GENIE3 (GEne Network Inference with Ensemble of trees) R-package
  ☆37Updated 3 years ago
• TheJacksonLaboratory / tcga_subtype_classification
  Detecting cancer subtypes with machine learning.
  ☆10Updated 5 years ago
• GreenleafLab / ChrAccR
  Analyzing chromatin accessibility data in R
  ☆18Updated 2 years ago
• caleblareau / mitoblacklist
  Repo for generating custom blacklist for reads originating from mitochondrial DNA to nuclear genome
  ☆22Updated 3 years ago
• ijuric / MAPS
  ☆19Updated 2 years ago
• weng-lab / BENGI
  ☆18Updated 3 years ago
• cxzhu / Paired-seq
  Paired-seq
  ☆14Updated last year
• jingshuw / SAVERX
  R package for transfer learning of single-cell RNA-seq denoising
  ☆30Updated 3 years ago