Alternatives and similar repositories for cnvkit-examples

Users that are interested in cnvkit-examples are comparing it to the libraries listed below

• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆25Updated 7 years ago
• sdchandra / CNAclinic
  ☆26Updated last year
• WGLab / SeqMule
  Automated human exome/genome variants detection from FASTQ files
  ☆23Updated 4 years ago
• cortes-ciriano-lab / ReConPlot
  ☆24Updated last year
• DKFZ-ODCF / ACEseqWorkflow
  Allele-specific copy number estimation with whole genome sequencing
  ☆23Updated 2 years ago
• oicr-gsi / sequenza
  Workflow for Sequenza, cellularity and ploidy
  ☆25Updated 3 months ago
• dantaki / CNVplot
  Plot CNV data with a genome viewer in R
  ☆15Updated 8 years ago
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆17Updated last year
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆52Updated 4 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆32Updated 2 years ago
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆40Updated 4 years ago
• zhongw2 / GeneTEFlow
  ☆23Updated 4 years ago
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆37Updated last year
• alexchwong / SpliceWiz
  SpliceWiz is an R package for exploring differential alternative splicing events in splice-aware alignment BAM files.
  ☆21Updated last week
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆31Updated 4 months ago
• gagneurlab / splicemap
  ☆23Updated 4 months ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated last year
• KhiabanianLab / All-FIT
  All-FIT - Allele-Frequency-based Imputation of Tumor Purity
  ☆18Updated 6 years ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆32Updated 4 years ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 9 months ago
• parklab / MuSiCal
  A comprehensive toolkit for mutational signature analysis
  ☆42Updated last year
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 4 years ago
• polyactis / Accucopy
  Accucopy is a computational method that infers Allele-Specific Copy Number alterations from low-coverage low-purity tumor sequencing data…
  ☆17Updated last year
• YingZhou001 / Immuannot
  Immuological gene typing and annotation for genome assembly
  ☆38Updated 9 months ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆34Updated 10 years ago
• MarWoes / wg-blimp
  wg-blimp: an end-to-end analysis pipeline for whole genome bisulfite sequencing data
  ☆28Updated 3 years ago
• BlanchetteLab / HIFI
  Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data
  ☆24Updated 3 years ago
• Xinglab / rMATS-long
  ☆34Updated last month
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆29Updated last year