Data analysis

  • Galaxy platform for data processing and analysis
  • Pipelines for data analysis
    • DNA-Seq
      • Variant calling – BWA/Bowtie2, GATK, GEMINI
      • Copy number variations (CNVs) – XHMM
      • Identification the causative genes for rare disorders – PhenGen
    • RNA-Seq
      • Variant calling – STAR, TopHat2, GATK
      • Differential analysis of microRNA – SHRiMP, DESeq2
      • Gene fusion detection – TopHat2, ChimeraScan, Chimera
    • Metagenomics – Amplicon 16S
      • Biodiversity analysis – QIIME
      • Taxonomic analysis – QIIME
    • Proteomics
      • Trans-Proteomic Pipeline

Biostatistics

  • Data analysis – R
  • Relationship inference – KING
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