Alternatives and similar repositories for AnnotSV

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

• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆193Updated this week
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆271Updated 3 months ago
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆197Updated last year
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆226Updated 3 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆198Updated last year
• abyzovlab / CNVpytor
  a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads
  ☆202Updated this week
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆247Updated this week
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆224Updated 8 months ago
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆374Updated 3 weeks ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆257Updated last year
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆223Updated 6 months ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆163Updated 2 years ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆138Updated 4 years ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆239Updated last month
• epi2me-labs / wf-human-variation
  ☆133Updated 2 weeks ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆219Updated last month
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆257Updated 2 years ago
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆234Updated this week
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆167Updated last year
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆275Updated 6 months ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆154Updated 3 years ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆141Updated 2 years ago
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆204Updated 4 years ago
• adamewing / bamsurgeon
  tools for adding mutations to existing .bam files, used for testing mutation callers
  ☆244Updated 10 months ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆157Updated 2 years ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆318Updated 3 years ago
• Illumina / Nirvana
  The nimble & robust variant annotator
  ☆184Updated last year
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆236Updated last week
• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆395Updated last year
• shiquan / bamdst
  a lightweight bam file depth statistical tool
  ☆153Updated 11 months ago