Alternatives and similar repositories for ShinyCNV:

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

• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated last week
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 6 years ago
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆28Updated 8 months ago
• guigolab / bamstats
  A command line tool to compute mapping statistics from a BAM file
  ☆23Updated 3 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• scottgigante / haplotyped-methylome
  Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  ☆23Updated 6 years ago
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆39Updated 2 years ago
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆14Updated last year
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated last month
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 3 years ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆15Updated last year
• cortes-ciriano-lab / ReConPlot
  ☆21Updated 2 months ago
• pughlab / VisCap
  VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…
  ☆22Updated 5 years ago
• sanjaynagi / rna-seq-pop
  Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
  ☆18Updated 3 months ago
• bioinform / breakseq2
  BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants
  ☆24Updated 8 years ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• IrinaVKuznetsova / CirGO
  ☆21Updated 9 months ago
• nygenome / Lancet2
  v2.x of the microassembly based somatic variant caller
  ☆20Updated 2 weeks ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• jmonlong / sveval
  Functions to compare a SV call sets against a truth set.
  ☆29Updated 10 months ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 6 months ago
• TheJacksonLaboratory / SVE
  ☆51Updated 5 years ago
• tommyau / bamclipper
  Remove primer sequence from BAM alignments by soft-clipping
  ☆31Updated 5 years ago
• kircherlab / CADD-SV
  CADD-SV – a framework to score the effect of structural variants
  ☆14Updated last month
• bartongroup / RATS
  Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.
  ☆32Updated 2 years ago
• zhongw2 / GeneTEFlow
  ☆23Updated 3 years ago
• PacificBiosciences / svpack
  Structural variant (SV) analysis tools
  ☆35Updated 8 months ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆39Updated last week
• dellytools / sansa
  Structural variant VCF annotation, duplicate removal and comparison
  ☆30Updated 2 weeks ago