hifiasm
hifiasm copied to clipboard
chhylp123
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
Hi! We try to assemble a diploid insect by HiFi-only mode in hifiasm(0.15) but the assembly result size both in hap1/2 are triple of we evaluation by kmer survey in...
Hello, professor I want to generate Haplotype-resolved assembly using hifiasm. Now, I have HiFi data, HiC data and parental illumina data, How do I use these data ? I try...
Hello, I have a memory problem when trying to assemble my heterozygous plant genome. I managed to get the haplotypes with 220G of memory and 32 CPUs but I can't...
I have a homozygous plant sepceis (estimatic size 1.1G). First, I run hifi read (33G) with hifiasm-0.16.1/hifiasm -o out.fasta -t 16 -l0 input.fasta. I get 1.8G p_ctg (N50 2.3M, not...
Dear hifiasm develpoer; I have used hifiasm and hic data to generate two haplotype contigs, and then used 3DDNA generated chromosomal-level haplotypes for a diploit genome (2x =500M, het=0.6%) ;...
Types defined in stdint.h require specific formaters included in inttypes.h Some unsigned32 types were displayed as signed, and vice-versa.
Some files were opened but never closed. This causes a resource leaks, which can be problematic in long running processes such as hifiasm, and even can cause security problems. Here,...
I am assembling a fairly homozygous polyploid plant genome with and without -l0 (purge duplicates) flag using ~30x CCS data. I am getting slightly different N50 and assembly size in...
Hi, I just wanted to clarify my understanding of the haplotypes produced in Hi-C mode. Based on the paper and the docs, my interpretation of the hap1/hap2 output files when...
Hi, now that hifiasm 'generates a pair of haplotype-resolved assemblies', what is the best way of scaffolding these? This has been on my mind a bit lately, and this might...
