Alternatives and similar repositories for QDNAseq

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

• mhguo1 / TRAPD
  Burden testing against public controls
  ☆50Updated last year
• asntech / QDNAseq.hg38
  QDNAseq.hg38: QDNAseq bin annotation for hg38
  ☆17Updated this week
• bioinfo-pf-curie / TMB
  Tumor Mutational Burden
  ☆63Updated 4 months ago
• bcgsc / HLAminer
  ⛏ HLA predictions from NGS shotgun data
  ☆55Updated 6 months ago
• hartwigmedical / pipeline5
  ☆21Updated last week
• girirajanlab / CN_Learn
  CN-Learn
  ☆30Updated 5 years ago
• gatk-workflows / gatk4-exome-analysis-pipeline
  This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…
  ☆55Updated 5 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆34Updated 10 years ago
• RahmanTeam / DECoN
  ☆54Updated 2 years ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆44Updated this week
• ikalatskaya / ISOWN
  ☆46Updated 6 years ago
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆75Updated last year
• huishenlab / biscuit
  BISulfite-seq CUI Toolkit
  ☆25Updated 2 weeks ago
• getzlab / deTiN
  DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…
  ☆53Updated 3 years ago
• nygenome / Conpair
  Concordance and contamination estimator for tumor–normal pairs
  ☆58Updated last year
• BoevaLab / ONCOCNV
  ONCOCNV - a package to detect copy number changes in Targeted Deep Sequencing and Exome-seq data
  ☆25Updated last month
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆98Updated 4 years ago
• parklab / ShatterSeek
  ☆72Updated 2 years ago
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• patidarr / ngs_pipeline
  Exome/Capture/RNASeq Pipeline Implementation using snakemake
  ☆47Updated 7 years ago
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆32Updated 3 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• Genotek / ClassifyCNV
  ClassifyCNV: a tool for clinical annotation of copy-number variants
  ☆69Updated 2 years ago
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆72Updated 5 years ago
• aeeckhou / shallowHRD
  This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …
  ☆34Updated 2 months ago
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆51Updated last month
• nloyfer / UXM_deconv
  ☆49Updated 2 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆51Updated 2 years ago
• bioinformatics-IBCH / Comparison-study-of-germline-CNV-calling-tools
  ☆16Updated 4 years ago