Alternatives and similar repositories for STAR-SEQR

Users that are interested in STAR-SEQR are comparing it to the libraries listed below

• fusiontranscripts / FusionBenchmarking
  Toolkit for benchmarking fusion transcript predictions
  ☆19Updated last month
• cancerit / alleleCount
  Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…
  ☆44Updated 3 years ago
• ChrisMaherLab / INTEGRATE-Vis
  ☆16Updated 2 years ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 3 years ago
• pmelsted / pizzly
  Fast fusion detection using kallisto
  ☆79Updated 7 months ago
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 7 years ago
• ccgd-profile / BreaKmer
  A method to identify structural variation from sequencing data in target regions
  ☆32Updated 5 years ago
• 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
• umccr / vcf_stuff
  📊Evaluating, filtering, comparing, and visualising VCF
  ☆28Updated 2 years ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• rhshah / iCallSV
  A Framework to call Structural Variants from NGS based datasets
  ☆22Updated 8 years ago
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆29Updated last year
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• viq854 / lichee
  Multi-sample cancer phylogeny reconstruction
  ☆36Updated 8 years ago
• murphycj / AGFusion
  Python package to annotate and visualize gene fusions.
  ☆65Updated last year
• nf-core / circdna
  Pipeline for the identification of extrachromosomal circular DNA (ecDNA) from Circle-seq, WGS, and ATAC-seq data that were generated from…
  ☆31Updated 8 months 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
• mskcc / ngs-filters
  Filters for false-positive mutation calls in NGS
  ☆34Updated 6 years ago
• FusionAnnotator / FusionAnnotator
  FusionAnnotator source code
  ☆16Updated 2 years ago
• eyzhao / hrdetect-pipeline
  ☆36Updated 6 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated 2 years ago
• namphuon / ViFi
  Pipeline for identifying viral integration and fusion mRNA reads from NGS data. Manuscript is currently in preparation.
  ☆30Updated 4 years ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆56Updated last year
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆30Updated last week
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• ExpressionAnalysis / HLAProfiler
  Using k-mers to call HLA alleles in RNA sequencing data
  ☆23Updated 7 years ago
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆42Updated 5 months ago
• pughlab / bamgineer
  Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets
  ☆38Updated 5 years ago
• sbg / smart-variant-filtering
  ☆29Updated 4 years ago