search

PacificBiosciences / FALCON_unzip

Making diploid assembly becomes common practice for genomic study
BSD 3-Clause Clear License
30 stars 18 forks source link

Qs: FALCON-unzip pipeline result #117

Open olechnwin opened 6 years ago

olechnwin commented 6 years ago

I'm still confused about what to do after running the pipeline. I've ran FALCON-unzip pipeline which including quiver to call high quality consensus. I got the cns_output/cns_p_ctg.fastq and cns_h_ctg.fastq. My questions:

  1. if a haplotigs is within a primary contig, that means sequences in the haplotigs represent one haplotype and the primary contig represent the other haplotype?
  2. What would be the best way to proceed? I was hoping to get two sets of fasta files for each of the haplotype that I can used to map RNA-seq data to identify allele-specific expression.

Thank you!