Alternatives and similar repositories for reg-gen

Users that are interested in reg-gen are comparing it to the libraries listed below

• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…
  ☆76Updated this week
• TrinityCTAT / Trinity_CTAT
  ☆120Updated 2 years ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆109Updated last year
• jernst98 / ChromHMM
  ☆93Updated 6 months ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆156Updated 2 months ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated 2 years ago
• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆74Updated last year
• KChen-lab / Monopogen
  SNV calling from single cell sequencing
  ☆118Updated last year
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆61Updated 4 months ago
• BUStools / bustools
  Tools for working with BUS files
  ☆102Updated 8 months ago
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆76Updated 4 years ago
• vanheeringen-lab / gimmemotifs
  Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…
  ☆123Updated 3 months ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆72Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆63Updated 2 months ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆98Updated last year
• broadinstitute / PhylogicNDT
  ☆82Updated 9 months ago
• 10XGenomics / bamtofastq
  Convert 10x BAM files to the original FASTQs compatible with 10x pipelines
  ☆66Updated 2 weeks ago
• PierreBSC / Viral-Track
  ☆63Updated 5 years ago
• FenyoLab / L1EM
  Estimate locus specific human LINE-1 expression.
  ☆39Updated last week
• epi2me-labs / wf-single-cell
  ☆104Updated this week
• ucagenomix / sicelore
  Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…
  ☆78Updated 2 years ago
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆57Updated 4 years ago
• mdozmorov / ChIP-seq_notes
  Notes on ChIP-seq and other-seq-related tools
  ☆26Updated last week
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆117Updated 3 months ago
• YeoLab / outrigger
  Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data
  ☆67Updated 5 years ago
• TRON-Bioinformatics / seq2HLA
  In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq f…
  ☆50Updated 5 months ago
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆72Updated last year
• cxzhu / Paired-Tag
  Analysis of Paired-Tag datasets
  ☆43Updated 2 years ago
• vierstralab / motif-clustering
  Clustering motif models to remove redundancy
  ☆43Updated 2 years ago