Falcon Unzip with Assembly fasta as input

PacificBiosciences / FALCON_unzip

Making diploid assembly becomes common practice for genomic study

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Falcon Unzip with Assembly fasta as input #100

Open ian15brown opened 7 years ago

ian15brown commented 7 years ago

Hi, I have inherited an assembly project wherein I have assembled p_ctg and a_gtg.fasta files and raw subreads. Falcon directory was lost during hardware failure. Is there a workaround to run Falcon_Unzip using assembly fasta and raw pacbio subreads.fasta?

Thanks in advance for your help. Cheers, Ian

pb-jchin commented 7 years ago

Well, FALCON-Unzip re-uses computed data during the FALCON assembly process. If you lost them, an automatic process is not possible. You can adopt traditional approach taking existing assembled contigs and phase/reconstruct haplotypes with the reads. FALCON-Unzip has the components to do it. On the other hand, if you are not familiar with related algorithm and computation techniques, it might be better to ask professional help.