Alternatives and similar repositories for scHiC_notes

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

• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆72Updated last year
• atarashansky / SAMap
  SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.
  ☆85Updated last year
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆73Updated 4 years ago
• cxzhu / Paired-Tag
  Analysis of Paired-Tag datasets
  ☆43Updated last year
• VRam142 / combinatorialHiC
  Scripts + resources for analyzing combinatorial Hi-C data
  ☆31Updated 6 years ago
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆71Updated last year
• CostaLab / reg-gen
  Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
  ☆112Updated last month
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆154Updated last month
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆92Updated last year
• open2c / distiller-nf
  A modular Hi-C mapping pipeline
  ☆100Updated last year
• vaquerizaslab / fanc
  FAN-C: Framework for the ANalysis of C-like data
  ☆120Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆128Updated last year
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆119Updated last month
• KChen-lab / Monopogen
  SNV calling from single cell sequencing
  ☆116Updated last year
• zhoujt1994 / scHiCluster
  ☆69Updated 3 weeks ago
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆92Updated last month
• buenrostrolab / scPrinter
  ☆56Updated 2 months ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…
  ☆76Updated last week
• ren-lab / hic-pipeline
  ☆25Updated 4 years ago
• YeoLab / eCLIP
  ☆38Updated 3 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated 2 years ago
• JinLabBioinfo / HiCorr
  HiCorr: a Hi-C data bias-correction pipeline
  ☆29Updated 8 months ago
• satijalab / PASTA
  ☆21Updated last year
• 4dn-dcic / docker-4dn-hic
  Docker for 4DN Hi-C processing pipeline
  ☆60Updated last year
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆74Updated last year
• YaqiangCao / cLoops2
  Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
  ☆52Updated 5 months ago
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆62Updated 4 years ago
• lrylaarsdam / amethyst
  A comprehensive toolkit for single-cell methylation sequencing data analysis
  ☆28Updated last week
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆54Updated 4 years ago
• 3UTR / DaPars2
  Dynamics analysis of Alternative PolyAdenylation from RNA-seq
  ☆63Updated 2 years ago