IDP-ASE(haplotyping and quantifying allele-specific expression at the gene and gene isoform level by hybrid sequencing)VCF File GPD File in Extended Format.

学习来源地址:

1,https://github.com/bdeonovic/IDPASE.jl 2, https://www.healthcare.uiowa.edu/labs/au/

  1. VCF File
  2. GPD File in Extended Format. You can utilize the accompanying script to convert from regular GPD to extended GPD.
     julia ~/.julia/v0.4/IDPASE/scripts/convert_gpd.jl mygpd.gpd > newgpd.gpd
  3. PSL alignment file of your hybrid-Seq data. You can convert from SAM/BAM to psl using libraries such as Au-public utilties in particular the sam_to_psl.py script.
  4. FASTQ file of your hybrid-Seq data

      Annotation fileGenepred file in extended format

      VCF fileList of biallelic, exonic SNPs in VCF format -------(#通过ANNOVAR对all_snp.vcf文件进行注释得到)

时间: 2024-10-29 11:38:51

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