Alternatives and similar repositories for CNVbench

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

• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆50Updated 3 weeks ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆52Updated last year
• RahmanTeam / DECoN
  ☆53Updated 2 years ago
• bioinformatics-IBCH / Comparison-study-of-germline-CNV-calling-tools
  ☆16Updated 4 years ago
• nloyfer / UXM_deconv
  ☆46Updated 2 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 10 years ago
• naumanjaved / fingerprint_maps
  Create "haplotype maps" of variants in order to use with Picardtools Crosscheck_Files utility, which allows for robust genotyping of func…
  ☆28Updated last year
• iprada / Circle-Map
  A method for circular DNA detection based on probabilistic mapping of ultrashort reads
  ☆66Updated last year
• mhguo1 / TRAPD
  Burden testing against public controls
  ☆50Updated last year
• bcgsc / HLAminer
  ⛏ HLA predictions from NGS shotgun data
  ☆54Updated 4 months ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 7 months ago
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆59Updated 2 years ago
• Genotek / ClassifyCNV
  ClassifyCNV: a tool for clinical annotation of copy-number variants
  ☆67Updated 2 years ago
• SyntekabioTools / HLAscan
  ☆25Updated 5 years ago
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆45Updated last year
• jason-weirather / hla-polysolver
  Fork of the Polysolver project
  ☆33Updated 5 years ago
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆27Updated 6 years ago
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆72Updated last year
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆68Updated 2 months ago
• zhqingit / giremi
  GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.
  ☆44Updated 8 years ago
• bioinfo-pf-curie / TMB
  Tumor Mutational Burden
  ☆61Updated 2 months ago
• BioinfoUNIBA / REDItools2
  ☆59Updated 2 months ago
• niu-lab / msisensor-ct
  Microsatellite instability (MSI) detection for cfDNA samples.
  ☆19Updated 4 years ago
• babelomics / SMAca
  SMN1 copy-number and sequence variant analysis from next generation sequencing data
  ☆23Updated 2 years ago
• FoundationMedicineInc / SGZ
  ☆43Updated last year
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 6 months ago
• OSU-SRLab / MANTIS
  Microsatellite Analysis for Normal-Tumor InStability
  ☆76Updated 3 years ago
• shahcompbio / hmmcopy_utils
  Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.
  ☆41Updated 4 years ago
• hartwigmedical / pipeline5
  ☆21Updated this week
• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆67Updated 6 years ago