xxay/hifiasm
1
0
Fork 0
mirror of https://github.com/chhylp123/hifiasm.git synced 2026-09-30 09:58:11 +08:00
Code Issues Packages Projects Releases Wiki Activity

added a "Why hifiasm?" section

Browse Source
This commit is contained in:
Heng Li
2020-10-05 01:01:58 -04:00
parent 00128c3076
commit 8cb131dca3
1 changed files with 23 additions and 0 deletions
Download Patch File Download Diff File Expand all files Collapse all files
README.md
+23
View File
@@ -30,6 +30,29 @@ produce primary/alternate assemblies of quality competitive with the best
assemblers. It also introduces a new graph binning algorithm and achieves
the best haplotype-resolved assembly given trio data.
## Why Hifiasm?
* Hifiasm delivers high-quality assemblies. It tends to generate longer contigs
and resolve more segmental duplications than other assemblers.
* Given sequence reads from the parents, hifiasm can produce overall the best
haplotype-resolved assembly so far. It is the assembler of choice by the
[Human Pangenome Project][hpp] for the first batch of samples.
* Hifiasm can purge duplications between haplotigs without relying on
third-party tools such as purge\_dups. Hifiasm does not need polishing tools
like pilon or racon, either. This simplifies the assembly pipeline and saves
running time.
* Hifiasm is fast. It can assemble a human genome in half a day and assemble a
~30Gb redwood genome in three days. No genome is too large for hifiasm.
* Hifiasm is trivial to install and easy to use. It does not required python,
R or C++11 compilers and can be compiled into a single executable. The
default setting works well with a variety of genomes.
[hpp]: https://humanpangenome.org
## Usage
A typical hifiasm command line looks like: