Alternatives and similar repositories for TIDDIT

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

• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆21Updated 5 years ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 4 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated 2 years ago
• sbg / smart-variant-filtering
  ☆29Updated 4 years ago
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆35Updated 8 years ago
• dantaki / SV2
  Support Vector Structural Variation Genotyper
  ☆58Updated 5 years ago
• nf-core / deepvariant
  Please consider using/contributing to https://github.com/nf-core/sarek
  ☆41Updated 4 years ago
• pughlab / bamgineer
  Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets
  ☆38Updated 5 years ago
• tommyau / bamclipper
  Remove primer sequence from BAM alignments by soft-clipping
  ☆31Updated 6 years ago
• Oshlack / STRetch
  Method for detecting STR expansions from short-read sequencing data
  ☆63Updated 4 years ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆67Updated 3 years ago
• Sentieon / sentieon-models
  Model files for Sentieon variant callers
  ☆16Updated 2 weeks ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆55Updated 5 years ago
• grocsvs / grocsvs
  Genome-wide reconstruction of complex structural variants
  ☆39Updated 3 years ago
• rgcgithub / clamms
  CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.
  ☆30Updated 4 years ago
• hmgu-itg / VCF-liftover
  Liftover VCF files
  ☆19Updated 9 years ago
• talkowski-lab / svtk
  ☆35Updated 4 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• brentp / rare-disease-wf
  (WIP) best-practices workflow for rare disease
  ☆62Updated last year
• pughlab / VisCap
  VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…
  ☆22Updated 6 years ago
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆31Updated 5 months ago
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆78Updated 2 months ago
• cauyrd / transIndel
  Indel caller for DNA-seq or RNA-seq
  ☆16Updated 2 years ago
• GregoryFaust / SVsim
  SVsim: a tool that generates synthetic Structural Variant calls as benchmarks to test/evaluate SV calling pipelines.
  ☆18Updated 8 years ago
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆29Updated last year
• quinlan-lab / ccrhtml
  A small repo for storing the code for making the files and html for CCRs.
  ☆22Updated 6 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆49Updated 6 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• ALLBio / allbiotc2
  Benchmark pipeline for Structural Variation analyses, funded by the ALLBio.
  ☆24Updated 11 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated 2 years ago