Alternatives and similar repositories for cfSNV

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

• parklab / SigMA
  Mutational signature analysis for low statistics SNV data
  ☆63Updated 11 months ago
• aeeckhou / shallowHRD
  This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …
  ☆34Updated last year
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• marvin-jens / find_circ
  tools to find circRNAs in RNA-seq data
  ☆43Updated 7 years ago
• soccin / BIC-variants_pipeline
  BIC@MSKCC Variants Pipeline
  ☆24Updated 2 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆31Updated last year
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆71Updated last year
• Bioconductor / copy-number-analysis
  Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis
  ☆20Updated 2 years ago
• broadinstitute / oncotator
  ☆68Updated 3 years ago
• sunhuaibo / Sun_bio
  ☆13Updated last year
• mhalushka / miRge3.0
  Comprehensive analysis of small RNA sequencing data
  ☆32Updated 2 months ago
• ChrisMaherLab / ClonEvol
  ☆13Updated 7 years ago
• ndbrown6 / MSK-GRAIL-TECHVAL
  High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants
  ☆22Updated 5 years ago
• mskcc / ngs-filters
  Filters for false-positive mutation calls in NGS
  ☆31Updated 6 years ago
• nriddiford / cnvPlotteR
  Advanced plotting functions for CNV data generated by CNV-Seq and Control Freec
  ☆13Updated 4 years ago
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆41Updated 4 years ago
• mskcc / facets-suite
  Utility functions for FACETS
  ☆38Updated last year
• vastgroup / vast-tools
  A toolset for profiling alternative splicing events in RNA-Seq data.
  ☆81Updated 5 months ago
• williamritchie / IRFinder
  Detecting intron retention from RNA-Seq experiments
  ☆55Updated last year
• patidarr / ngs_pipeline
  Exome/Capture/RNASeq Pipeline Implementation using snakemake
  ☆47Updated 7 years ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 4 years ago
• rcavalcante / annotatr
  Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…
  ☆27Updated 2 weeks ago
• sdchandra / CNAclinic
  ☆24Updated 11 months ago
• OSU-SRLab / MANTIS
  Microsatellite Analysis for Normal-Tumor InStability
  ☆72Updated 3 years ago
• ENCODE-DCC / dna-me-pipeline
  DCC/DAC methylation pipeline source
  ☆56Updated 4 years ago
• cancer-genomics / reproduce_lucas_wflow
  ☆30Updated last year
• dariober / cnv_facets
  Somatic copy variant caller (CNV) for next generation sequencing
  ☆73Updated 10 months ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆62Updated 4 years ago
• bjtrost / TCAG-WGS-CNV-workflow
  Scripts involved in our workflow for detecting CNVs from WGS data using read depth-based methods
  ☆46Updated 2 years ago
• biowdl / RNA-seq
  A BioWDL pipeline for processing RNA-seq data, starting with FASTQ files to produce expression measures and VCFs. Category:Multi-Sample
  ☆32Updated 2 years ago