Alternatives and similar repositories for iCNV

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

• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆43Updated 4 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…
  ☆44Updated 3 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆32Updated 2 years ago
• mskcc / ngs-filters
  Filters for false-positive mutation calls in NGS
  ☆34Updated 6 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 11 months ago
• hellbelly / BS-Snper
  ☆39Updated 4 years ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 4 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆36Updated 4 years ago
• stianlagstad / chimeraviz
  chimeraviz is an R package that automates the creation of chimeric RNA visualizations.
  ☆39Updated 2 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆49Updated 6 years ago
• eyzhao / hrdetect-pipeline
  ☆36Updated 6 years ago
• talkowski-lab / SV-Adjudicator
  ☆25Updated 7 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆38Updated 2 years ago
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆72Updated last year
• sdchandra / CNAclinic
  ☆26Updated last year
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆17Updated last year
• hall-lab / gtex
  GTEx analysis scripts
  ☆20Updated 8 years ago
• heathsc / gemBS
  gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…
  ☆32Updated 3 years ago
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆40Updated 4 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• jrflab / modules
  MSKCC Reis-Filho Lab pipeline thingy
  ☆18Updated 3 months ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 3 years ago
• ndbrown6 / MSK-GRAIL-TECHVAL
  High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants
  ☆22Updated 5 years ago
• huishenlab / biscuit
  BISulfite-seq CUI Toolkit
  ☆25Updated 3 weeks ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• nghiavtr / FuSeq
  ☆33Updated 3 years ago
• hartwigmedical / pipeline5
  ☆21Updated last month
• mskcc / facets-suite
  Utility functions for FACETS
  ☆39Updated 2 months ago