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
• 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
• tianshilu / QBRC-Neoantigen-Pipeline
  QBRC Neoantigen calling pipeline with CSiN calculation embedded
  ☆24Updated 3 years ago
• klarman-cell-observatory / perturbseq
  Perturb-seq analysis package
  ☆14Updated last year
• broadinstitute / mix_seq_ms
  Code associated with MIX-seq manuscript
  ☆15Updated 5 years ago
• SpatialTranscriptomicsResearch / std-nb
  Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
  ☆22Updated 6 years ago
• FunctionLab / sei-manuscript
  Code for reproducing the Sei manuscript results
  ☆17Updated 3 years ago
• SchulzLab / STARE
  TF analysis from epigenetic and Hi-C data
  ☆17Updated 4 months ago
• ijuric / MAPS
  ☆19Updated 2 years ago
• huishenlab / compartmap
  Reconstruction of higher order chromatin from scRNA-seq and scATAC-seq
  ☆14Updated 3 weeks ago
• broadinstitute / single_cell_classification
  Methods to use SNPs or gene expression to classify single cell RNAseq to reference profiles
  ☆29Updated 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
• r3fang / snATAC
  <<------ Use SnapATAC!!
  ☆25Updated 6 years ago
• aertslab / GENIE3
  GENIE3 (GEne Network Inference with Ensemble of trees) R-package
  ☆37Updated 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
• dbrg77 / scATAC_snakemake
  Snakemake pipeline for plate scATAC-seq processing
  ☆26Updated last year
• hemberg-lab / MicroExonator
  Snakemake pipeline for microexon discovery and quantification
  ☆20Updated 7 months ago
• sinanugur / cellsnake
  Cellsnake tool main repo
  ☆33Updated last year
• DeplanckeLab / ChromatinHD
  High-definition modeling of chromatin + transcriptomics data
  ☆24Updated 4 months ago
• mandricigor / imrep
  ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
  ☆28Updated 5 years ago
• de-Boer-Lab / MAUDE
  Mean Alterations Using Discrete Expression
  ☆14Updated last year
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆46Updated last year
• khodosevichlab / CellAnnotatoR
  Automated marker-based annotation of cell types
  ☆13Updated 3 years ago
• splicebox / MntJULiP
  Comprehensive and scalable differential splicing analyses
  ☆17Updated 5 months ago
• tjs23 / nuc_dynamics
  Particle dynamics and simulated annealing for chromosome structure calculation
  ☆29Updated last year
• erhard-lab / price
  Improved Ribo-seq enables identification of cryptic translation events
  ☆15Updated 7 years ago
• jiujiezz / tsnad
  Detecting somatic mutations and predicting tumor-specific neo-antigens
  ☆29Updated 4 years ago
• weng-lab / BENGI
  ☆18Updated 2 years ago
• jingshuw / SAVERX
  R package for transfer learning of single-cell RNA-seq denoising
  ☆30Updated 3 years ago