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Joses W. Ho
Estimation statistics, craft beer, data visualization, web scraping, poetry
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By
Joses W. Ho
Edited
May 29, 2023
1 star
Insert cell
Insert cell
Insert cell
htl
.
html
`<pre>${
samtoolsOut
.
stdout
}</pre>`
Insert cell
samtoolsOut
=
cliObj
.
cli
.
exec
(
"samtools view /shared/data/test.bam 20:39,352,829-39,352,842"
)
Insert cell
await
cliObj
.
cli
.
mount
(
[
{
name
:
"test.bam"
,
url
:
bamURL
}
,
{
name
:
"test.bam.bai"
,
url
:
baiURL
}
]
)
Insert cell
bamURL
=
"https://1000genomes.s3.amazonaws.com/phase3/data/NA12878/alignment/NA12878.chrom20.ILLUMINA.bwa.CEU.low_coverage.20121211.bam"
Insert cell
baiURL
=
bamURL
+
".bai"
Insert cell
Insert cell
htl
.
html
`<pre>${
minimapOut
.
stdout
}</pre>`
Insert cell
minimapOut
=
cliObj
.
cli
.
exec
(
"minimap2 -a /minimap2/MT-human.fa /minimap2/MT-orang.fa"
)
Insert cell
Insert cell
cliObj
=
(
{
cli
:
await
new
Aioli
(
[
"samtools/1.10"
,
"minimap2/2.22"
]
,
{
printInterleaved
:
false
}
)
}
)
Insert cell
Aioli
=
require
(
"@biowasm/aioli@3.1.0/dist/aioli.js"
)
Insert cell
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