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update README

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chhylp123
2020-04-12 20:51:18 -04:00
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README.md
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@@ -66,14 +66,12 @@ For Hifi reads assembly, a typical command line looks like:
```
where `NA12878.fq.gz` is the input reads and `-o` specifies the output files.
In this example, all output files can be found at `NA12878.asm.*`. `-k`, `-t`
and `-r` specify the length of k-mer, the number of CPU threads, and the number
of correction rounds, respectively. Note that at first run, hifiasm will save
all overlaps to disk, which can avoid the time-consuming all-to-all overlap
calculation next time. For hifiasm, once the overlap information has been
obtained during the previous run in advance, it is able to load all overlaps
from disk and then directly do assembly. If you want to ignore the pre-computed
overlap information, please specify `-i`.
In this example, all output files can be found at `NA12878.asm.*`. `-t` specifies
the number of CPU threads. Note that at first run, hifiasm will save all overlaps
to disk, which can avoid the time-consuming all-to-all overlap calculation next time.
For hifiasm, once the overlap information has been obtained during the previous run
in advance, it is able to load all overlaps from disk and then directly do assembly.
If you want to ignore the pre-computed overlap information, please specify `-i`.
Please note that some old Hifi reads may consist of short adapters. To improve
the assembly quality, adapters should be removed by `-z` as follow: