Alternatives and similar repositories for CancerVar:

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

• aeeckhou / shallowHRD
  This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …
  ☆33Updated 6 months ago
• broadinstitute / gistic2
  Genomic Identification of Significant Targets in Cancer (GISTIC), version 2
  ☆48Updated 2 years ago
• broadinstitute / RNA_MUTECT_1.0-1
  ☆38Updated 4 years ago
• OSU-SRLab / MANTIS
  Microsatellite Analysis for Normal-Tumor InStability
  ☆69Updated 2 years ago
• jason-weirather / hla-polysolver
  Fork of the Polysolver project
  ☆30Updated 5 years ago
• mhguo1 / TRAPD
  Burden testing against public controls
  ☆50Updated 10 months ago
• bahlolab / bioinfotools
  Documenting usage and experience with bioinformatic tools
  ☆40Updated 9 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 5 years ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …
  ☆61Updated last month
• naumanjaved / fingerprint_maps
  Create "haplotype maps" of variants in order to use with Picardtools Crosscheck_Files utility, which allows for robust genotyping of func…
  ☆26Updated last year
• broadinstitute / PhylogicNDT
  ☆71Updated 8 months ago
• nloyfer / UXM_deconv
  ☆40Updated 2 years ago
• PGDX / cerebro-paper
  ☆23Updated 6 years ago
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 6 years ago
• XWangLabTHU / cfDNApipe
  cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data
  ☆61Updated 2 years ago
• fpbarthel / GLASS
  GLASS consortium
  ☆38Updated 4 years ago
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆75Updated last month
• ding-lab / MuSiC2
  identifying mutational significance in cancer genomes
  ☆60Updated 2 years ago
• bioinfo-pf-curie / TMB
  Tumor Mutational Burden
  ☆55Updated 4 months ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆96Updated 3 years ago
• bjtrost / TCAG-WGS-CNV-workflow
  Scripts involved in our workflow for detecting CNVs from WGS data using read depth-based methods
  ☆45Updated 2 years ago
• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆30Updated 4 years ago
• Wedge-lab / battenberg
  Battenberg R package for subclonal copynumber estimation
  ☆83Updated 2 months ago
• TRON-Bioinformatics / seq2HLA
  In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq f…
  ☆48Updated last year
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆27Updated last year
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆42Updated 4 years ago
• WGLab / Phen2Gene
  Phenotype driven gene prioritization for HPO
  ☆45Updated 3 years ago
• ding-lab / PanCanAtlasGermline
  ☆43Updated 6 years ago
• jlab-code / MethylStar
  A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
  ☆33Updated 3 years ago
• adoebley / Griffin
  A flexible framework for nucleosome profiling of cell-free DNA
  ☆27Updated last year