Alternatives and similar repositories for delly

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

• pcingola / SnpEff
  ☆279Updated 4 months ago
• gpertea / stringtie
  Transcript assembly and quantification for RNA-Seq
  ☆445Updated last week
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆543Updated 11 months ago
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆367Updated 3 years ago
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆419Updated 5 months ago
• fritzsedlazeck / Sniffles
  Structural variation caller using third generation sequencing
  ☆596Updated 2 weeks ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆319Updated 3 years ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆254Updated 2 years ago
• TransDecoder / TransDecoder
  TransDecoder source
  ☆291Updated 8 months ago
• arq5x / lumpy-sv
  lumpy: a general probabilistic framework for structural variant discovery
  ☆329Updated 3 years ago
• RealTimeGenomics / rtg-tools
  RTG Tools: Utilities for accurate VCF comparison and manipulation
  ☆319Updated 3 weeks ago
• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆384Updated last year
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆269Updated last year
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆224Updated 3 years ago
• pezmaster31 / bamtools
  C++ API & command-line toolkit for working with BAM data
  ☆425Updated last month
• Nextomics / NextDenovo
  Fast and accurate de novo assembler for long reads
  ☆388Updated last year
• deweylab / RSEM
  RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
  ☆442Updated last year
• usadellab / Trimmomatic
  ☆253Updated last year
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆340Updated last month
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆242Updated 2 months ago
• philres / ngmlr
  NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…
  ☆303Updated last year
• Illumina / strelka
  Strelka2 germline and somatic small variant caller
  ☆372Updated 3 years ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆262Updated last month
• agshumate / Liftoff
  An accurate GFF3/GTF lift over pipeline
  ☆486Updated last year
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆138Updated 10 years ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆260Updated 3 months ago
• mummer4 / mummer
  Mummer alignment tool
  ☆515Updated 4 months ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆234Updated 4 years ago
• WGLab / doc-ANNOVAR
  Documentation for the ANNOVAR software
  ☆243Updated 3 months ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆270Updated 4 months ago