Alternatives and similar repositories for AnnotSV

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

• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆280Updated 7 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆200Updated this week
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆232Updated 3 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆201Updated 2 years ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆250Updated 3 months ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆226Updated 11 months ago
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆208Updated 4 years ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆262Updated 2 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆284Updated 11 months ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆175Updated last year
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆261Updated last year
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆394Updated last month
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆246Updated this week
• abyzovlab / CNVpytor
  a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads
  ☆210Updated 3 months ago
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆257Updated 3 months ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆139Updated 4 years ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆218Updated last month
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆227Updated 6 months ago
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆202Updated last year
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆160Updated 10 months ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆254Updated 5 months ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆167Updated 2 years ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆235Updated last year
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆322Updated 3 years ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆251Updated last week
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• epi2me-labs / wf-human-variation
  ☆146Updated last month
• pcingola / SnpEff
  ☆299Updated 3 weeks ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆274Updated 2 years ago