WGLab / PennCNV

Related projects: ⓘ

• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆107Updated 2 months ago
• CCDG / Pipeline-Standardization
  ☆81Updated 5 years ago
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆122Updated 3 months ago
• xihaoli / STAARpipeline
  An R package for performing association analysis of whole-genome/whole-exome sequencing (WGS/WES) studies using STAARpipeline
  ☆58Updated last month
• geocarvalho / sv-cnv-studies
  Relevant papers for CNV and SV approaches
  ☆94Updated 3 weeks ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆93Updated 3 years ago
• sztup / scarHRD
  ☆102Updated last year
• PacificBiosciences / IsoSeq_SA3nUP
  ☆80Updated this week
• PapenfussLab / StructuralVariantAnnotation
  R package designed to simplify structural variant analysis
  ☆68Updated 2 years ago
• ding-lab / MuSiC2
  identifying mutational significance in cancer genomes
  ☆59Updated last year
• gatk-workflows / seq-format-conversion
  Workflows for converting between sequence data formats
  ☆36Updated 3 years ago
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆127Updated last week
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆68Updated 3 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  This repo has been archived, these workflows are still available in the GATK repository under the scripts directory.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
• slowkow / snakefiles
  Snakefiles for common RNA-seq data analysis workflows (STAR and Kallisto).
  ☆89Updated 7 years ago
• CenterForMedicalGeneticsGhent / WisecondorX
  WisecondorX — An evolved WISECONDOR
  ☆93Updated this week
• compbiocore / VariantVisualization.jl
  Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
  ☆84Updated last year
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆137Updated last year
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆90Updated 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 3 years ago
• AstraZeneca-NGS / reference_data
  Reference data: BED files, genes, transcripts, variations.
  ☆80Updated 6 years ago
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆51Updated 3 years ago
• gencorefacility / variant-calling-pipeline-gatk4
  Variant Calling Pipeline Using GATK4 and Nextflow
  ☆51Updated last year
• freeseek / mocha
  MOsaic CHromosomal Alterations (MoChA) caller
  ☆79Updated last month
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆92Updated 3 months ago
• tderrien / FEELnc
  FEELnc : FlExible Extraction of LncRNA
  ☆80Updated last week
• mozack / abra2
  ABRA2
  ☆90Updated last year
• dariober / cnv_facets
  Somatic copy variant caller (CNV) for next generation sequencing
  ☆69Updated last week
• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆73Updated last month
• oncokb / oncokb-annotator
  Annotates variants in MAF with OncoKB annotation.
  ☆121Updated 3 months ago