Alternatives and similar repositories for gridss

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

• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆258Updated 2 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆188Updated last week
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆201Updated 4 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆200Updated last year
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆246Updated last week
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆252Updated 11 months ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆159Updated 2 years ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆214Updated last month
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆197Updated 3 months ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆224Updated 3 weeks ago
• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆379Updated last year
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆268Updated last year
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆161Updated 9 months ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆151Updated 3 years ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆150Updated 2 years ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆543Updated 10 months ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆253Updated last year
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆215Updated 5 months ago
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆193Updated last year
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆317Updated 3 years ago
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆222Updated 3 years ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆137Updated 4 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆270Updated 4 months ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆226Updated this week
• pcingola / SnpEff
  ☆277Updated 3 months ago
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆357Updated last month
• gatk-workflows / gatk4-data-processing
  Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools
  ☆151Updated 2 years ago
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆311Updated 2 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆252Updated 2 years ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago