WGLab / PennCNV

Related projects ⓘ

Alternatives and complementary repositories for PennCNV

• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆111Updated 4 months 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…
  ☆50Updated 4 years ago
• sztup / scarHRD
  ☆103Updated last year
• compbiocore / VariantVisualization.jl
  Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
  ☆85Updated last year
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆94Updated 3 years ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆137Updated last year
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆126Updated 5 months ago
• slowkow / snakefiles
  Snakefiles for common RNA-seq data analysis workflows (STAR and Kallisto).
  ☆89Updated 7 years ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆94Updated 6 months ago
• geocarvalho / sv-cnv-studies
  Relevant papers for CNV and SV approaches
  ☆94Updated 2 weeks ago
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆94Updated 7 months ago
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆52Updated 4 years ago
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆69Updated 4 years ago
• gatk-workflows / seq-format-conversion
  Workflows for converting between sequence data formats
  ☆37Updated 3 years ago
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆128Updated last week
• PapenfussLab / StructuralVariantAnnotation
  R package designed to simplify structural variant analysis
  ☆70Updated 2 years ago
• CCDG / Pipeline-Standardization
  ☆81Updated 5 years ago
• gencorefacility / variant-calling-pipeline-gatk4
  Variant Calling Pipeline Using GATK4 and Nextflow
  ☆53Updated last year
• Illumina / Pisces
  Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.
  ☆96Updated 2 years ago
• ding-lab / MuSiC2
  identifying mutational significance in cancer genomes
  ☆60Updated 2 years ago
• bahlolab / bioinfotools
  Documenting usage and experience with bioinformatic tools
  ☆40Updated 9 years ago
• CandiceChuDVM / RNA-Seq
  New user
  ☆42Updated 4 years ago
• YangLab / CIRCexplorer
  A combined strategy to identify circular RNAs (circRNAs and ciRNAs) (Zhang et al., Complementary Sequence-Mediated Exon Circularization, …
  ☆60Updated 5 years ago
• gatk-workflows / gatk4-somatic-snvs-indels
  This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…
  ☆76Updated 4 years ago
• WGLab / Phen2Gene
  Phenotype driven gene prioritization for HPO
  ☆44Updated 3 years ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆49Updated 3 months ago
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆142Updated last year
• patidarr / ngs_pipeline
  Exome/Capture/RNASeq Pipeline Implementation using snakemake
  ☆45Updated 6 years ago
• tderrien / FEELnc
  FEELnc : FlExible Extraction of LncRNA
  ☆82Updated 2 months ago