xxay/hifiasm
1
0
Fork 0
mirror of https://github.com/chhylp123/hifiasm.git synced 2026-10-08 07:48:11 +08:00
Code Issues Packages Projects Releases Wiki Activity

update readme

Browse Source
This commit is contained in:
chhylp123
2020-06-27 10:57:22 -04:00
parent 71f6c93d58
commit 449950cddb
2 changed files with 6 additions and 11 deletions
Download Patch File Download Diff File Expand all files Collapse all files
README.md
+3 -4
View File
@@ -46,15 +46,14 @@ assembly by multiple rounds of experiments with different parameters.
Hifiasm is a standalone and lightweight assembler, which does not need external
libraries (except zlib). For large genomes, it can generate high-quality
assembly in a few hours. Hifiasm has been tested on human, butterfly, rice and drosophila.
In particular, hifiasm is able to assemble the 26.5Gb California redwood tree in a few days.
assembly in a few hours. Hifiasm has been tested on various large and complex datasets.
The results are as follows:
|<sub>Dataset<sub>|<sub>GSize<sub>|<sub>Cov<sub>|<sub>Asm options<sub>|<sub>CPU time<sub>|<sub>Wall time<sub>|<sub>RAM<sub>|<sub>[unitig][unitig]/[contig][unitig] N50<sup>[1]</sup><sub>|
|<sub>Dataset<sub>|<sub>GSize<sub>|<sub>Cov<sub>|<sub>Asm options<sub>|<sub>CPU time<sub>|<sub>Wall time<sub>|<sub>RAM<sub>|<sub> N50<sub>|
|:---------------|-----:|-----:|:---------------------|-------:|--------:|----:|----------------:|
|<sub>[\[Mouse (C57/BL6J)\]](https://www.ncbi.nlm.nih.gov/sra/?term=SRR11606870)<sub>|<sub>2.7Gb<sub>|<sub>x25<sub>|<sub>-t48 -l0<sub>|<sub>172.9h<sub>|<sub>4.8h<sub>|<sub>76G<sub>|<sub>20.6Mb<sub>|
|<sub>[\[Redwood\]](https://downloads.pacbcloud.com/public/dataset/redwood2020/)<sub>|<sub>26.5Gb<sub>|<sub>x23<sub>|<sub>-k 40 -t 64 -r 2<sub>|<sub>7274h30m<sub>|<sub>141h30m<sub>|<sub>512G<sub>|<sub>1.7Mb/1.9Mb<sub>|
<sub>[1] unitig N50 is the N50 of assembly graph with haplotype information (i.e., bubbles), while the contig N50 is the N50 of haplotype collapsed assembly (i.e., without bubbles).<sub>
## Usage