hifiasm

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run with hifi and Hi-C data get Segmentation fault

3

Hi, I run hifiasm with ~20G hifi reads with paired Hi-C read (50G for read1, 49G for read2), the genome size is around 3G. I had test hifiasm with the...

yiqijiang17

malloc(): memory corruption Aborted (core dumped)

5

Hi, Thanks for this great software! I am hoping to assemble a plant genome (2n~1.8Gb) and have about 48.5Gb of HiFi data (~26X coverage for diploid genome) with some PE...

cyhkim

No peak for the heterozygous read coverage

1

I applied `hifiasm` to create a *de novo* assembly using HiFi reads sequenced from the genome of a diploid human cell line. When I checked the log file (attached), I...

aboersch

Hi-C integrated assembly result selection

3

hello, I get two results of the Hi-C integrated assembly : hic.hap1.p_ctg.gfa and hic.hap2.p_ctg.gfa hic.hap1.p_ctg.gfa :354 contigs, N50 28114168bp, N75 28114168bp hic.hap2.p_ctg.gfa :180 contigs, N50 30303413bp, N75 29191692bp Which one...

xiaobaiymq

Naming of contigs in output

1

We found a few contigs labeled `ptgXXXXXXc` alongside the contigs labeled `ptgXXXXXXl` within our assembly. I wasn't able to locate any documentation on what the ptg or the c vs....

skagawa2

choosing l based on heterozygosity

1

Hello, I wonder if there is a way to choose right away the best `-l` value when working with genomes at different levels of heterozygosity. The genome I am handling...

dcopetti

Error Message reads: "Killed"

6

I'm currently working on assembling HiFi reads for a highly heterozygous species. When I run the following command: ``` hifiasm -o .asm -t49 -f39 read.1.fastq.gz read.2.fastq.gz``` I receive the following...

smvelazquez

result for polyploid

5

Hello, I have assembled a tetraploid genome using hifiasm. The size of *r_utg.gfa and *p_utg.gfa are consistent with all tetraploid genome size . *bp.p_ctg.gfa is a little smaller than all...

zhidaobuzhidao

HiFIasm is taking to much RAM to run with low coverage data

10

Hi, I am trying to assembly some low coverage HIFI reads for a plant genome. I am running this assembly in a cluster with SLURM. It is easier for me...

ericgonzalezs

triploid assembly and usage of HiC

1

Dear Author I am assembling a triploid material genome which is about 1GB by HiFi and HiC data,use hifiasm 0.16.1-r375. My result of command shown as follow: command : `hifiasm...

YuChrming