Alternatives and similar repositories for CNVnator

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

• AstraZeneca-NGS / VarDict
  VarDict
  ☆200Updated last year
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆267Updated last month
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆249Updated 2 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆195Updated this week
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆198Updated last year
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆260Updated 2 years ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆279Updated 5 months ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆172Updated last year
• shiquan / bamdst
  a lightweight bam file depth statistical tool
  ☆157Updated last year
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆319Updated 3 years ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆138Updated 4 years ago
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆251Updated last month
• abyzovlab / CNVpytor
  a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads
  ☆208Updated last month
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆226Updated 4 months ago
• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆399Updated last year
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆259Updated last year
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆282Updated 9 months ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆154Updated 3 years ago
• GregoryFaust / samblaster
  samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.
  ☆235Updated 4 years ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆223Updated 9 months ago
• WGLab / InterVar
  A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline
  ☆199Updated 2 years ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆143Updated 2 years ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆250Updated 4 months ago
• akdemirlab / HiCPlotter
  “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau
  ☆189Updated 5 years ago
• arq5x / lumpy-sv
  lumpy: a general probabilistic framework for structural variant discovery
  ☆334Updated 3 years ago
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆117Updated 6 years ago
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆240Updated this week
• bioinform / somaticseq
  An ensemble approach to accurately detect somatic mutations using SomaticSeq
  ☆199Updated 3 months ago
• WGLab / doc-ANNOVAR
  Documentation for the ANNOVAR software
  ☆245Updated 3 months ago