hifiasm

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How do you assemble chromosomes X and Y?

3

Dear author, how can you assemble X and Y chromosomes? What parameters and data need to be added

zuodabin

Hello I'm currently assembling a diploid fungal genome using hifiasm and Hi-C ont hifi data. After analyzing the data with juicer and applying 3d-dna, I've discerned the structure of two...

Hanjiangna

Thank you very much for providing such useful assembly software！ The hifiasm version I am using is 0.19.8-r603 I am trying to assemble a diploid genome, first using the following...

xujialupaoli

This PR simply moves all source files to a folder called `src/` and compiles all files into a folder called `build/`. This makes the project more readable and cleaner, since...

isovic

Hello, I'm trying to curate the assembly produced by hifiasm by reassembling the reads at the assembly tips with different parameters and assemblers. This would be bit more efficient if...

diego-rt

I try to assemble herro error corrected reads with hifiasm 0.19.8 But the number of kmers seen a low number of times does not decrease as expected Initial histogram in...

chklopp

Interchromosomal misjoin

1

Hi, I am using hifiasm 0.19.8-r603 to do human genome assembly using hifi-only data. After the assembly, I found there is a interchromosomam misjoin reported by `paftools.js misjoin -c centromeres.bed...

Han-Cao

missing 8Mb sequences in the assembly

5

We assembled a set of 11 genomes of the same crop species with hifiasm version 0.19.8-r603. One of the 11, lineA, was an outlier in terms of overall assembly size....

xzhoubayer

Hi! I am assembling a hetrozygous diploid plant genome with 110X HiFi reads and Hi-C data. The hetrozygosity is about 1%, and the genome size is 1 Gb per haplotype....

s-kyungyong

Basic Question About HiFi Input

3

I've scanned the Docs and the Issues and can't see anything about which reads are used from PacBio HiFi sequencing output. Should the total ccs reads located in the 'reads'...

foreignsand