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baozg / Potato_C88

Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning
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Is it possible to add scripts? #2

Closed knagasaka closed 5 months ago

knagasaka commented 1 year ago

Hi Zhigui,

Thank you very much for your previous detailed answers!

Sorry if I am mistaken, but I don't think I can find the following script. Besides, "# combine" in STEP4 (haplotype-aware genetic mapping) may be missing some details.

Would it be possible to add a script? I would really appreciate it if you could.

Thank you in advance, Kyoka

readnum2fitPoly.pl fitPoly.R fitPoly2genotype.pl cor_diplotig.py complement.pl reformat.pl

baozg commented 1 year ago

Hi Kyoka,

Sorry for the late response. I already add the missing script to the GitHub. For the combine step, just cat all the unitig groups and reformat into the hifiasm requirement input.

I will reformat all the code into the Snakemake pipeline and add out data for better reproductivity in the next month.

Best regards Zhigui

knagasaka commented 1 year ago

Hi Zhigui,

Thank you so much for your help! Your work is excellent. I can learn a lot from your work. I am waiting for your future updates.

Best regards, Kyoka