leon945945

I also meet the same question! Augustus had been stuck for four days, no error raised and everything seemed ok, but no new results updated. Here is my code: `${augustus}...

Do the hard-masked repeats have big influence on annotated gene number? I used hard-masked genome to annotate genes. Now try the soft-masked genome to see the gene number difference with...

Reads has been loaded. [M::ha_triobin_list::2.950*1.00] created the hash table for read names [M::ha_triobin_set_list::2.976*1.00] flagged 107786 reads, out of 107786 lines in file 'AJTC.asm.hap1.phase.bin' [M::ha_triobin_set_list::3.042*1.00] flagged 128473 reads, out of 128473...

[sample.asm.hap1.phase.bin.txt](https://github.com/chhylp123/hifiasm/files/11645921/sample.asm.hap1.phase.bin.txt) [sample.asm.hap2.phase.bin.txt](https://github.com/chhylp123/hifiasm/files/11645922/sample.asm.hap2.phase.bin.txt) Here are the two bin files, not sure whether I share the right bin files.

They are several Gb, is it convenient to upload them?

Thanks for your suggestions @olekto . I assembled the scaffolds from `hifiasm` to super-scaffolds with HiC data by `3d-DNA`, the depth of HiC data is around ~100X. It resulted in...

Hi, I checked the length of kmer intervals in progeny genome. The paternal-specific kmers occupied 70Mb. The maternal-specific kmers occupied 218Mb. The overlapped intervals of paternal-specific kmers and maternal-specific kmers...

Maybe I get the reason.

same requirement as @elcortegano, HiFi data is beneficial for insertion identification and the 5mC methylation status may be highly related with these insertions, the support for 5mC of insertion sequence...

Thank you for your reply. I have another question about calculating methylation precentage of one region. Let's say there is a 100bp region, each nucleotide has coverage 4, the region...