Alternatives and similar repositories for vdjviz:

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

• ChrisMaherLab / INTEGRATE-Neo
  ☆19Updated 7 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 2 years ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 4 months ago
• mskcc / ngs-filters
  Filters for false-positive mutation calls in NGS
  ☆30Updated 5 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 6 years ago
• 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…
  ☆43Updated 2 years ago
• pdxgx / neoepiscope
  predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
  ☆26Updated last year
• yuchaojiang / MARATHON
  Integrative pipeline for profiling DNA copy number and inferring tumor phylogeny
  ☆20Updated 5 years ago
• eyzhao / hrdetect-pipeline
  ☆34Updated 5 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated 2 months ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆28Updated last week
• PGDX / cerebro-paper
  ☆23Updated 6 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated last month
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆40Updated 3 years ago
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆37Updated 10 months ago
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• caravagnalab / mobster
  Model-based subclonal deconvolution from bulk sequencing.
  ☆33Updated last month
• getzlab / deTiN
  DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…
  ☆49Updated 2 years ago
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 6 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆34Updated 3 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 5 years ago
• fusiontranscripts / FusionBenchmarking
  Toolkit for benchmarking fusion transcript predictions
  ☆18Updated 6 months ago
• LosicLab / starchip
  Detection of Circular RNA and Fusions from RNA-Seq
  ☆32Updated 6 years ago
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆16Updated 6 years ago
• jason-weirather / hla-polysolver
  Fork of the Polysolver project
  ☆30Updated 5 years ago
• sfu-compbio / sinvict
  SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA
  ☆27Updated 4 years ago
• broadinstitute / RNA_MUTECT_1.0-1
  ☆37Updated 4 years ago
• PeeperLab / CopywriteR
  DNA copy number detection from off-target sequence data
  ☆30Updated 6 years ago