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Results for "
sam
"
Wire posts
Jit
@jit.aber
sam
tools view -Sb pilonCor_round1.fasta.out.
sam
|
sam
tools sort -m 4G -@ 40 -o pilonCor_round1.fasta.out.sorted.bam - &&
sam
tools index -@ 40 pilonCor_round1.fasta.out.sorted.bam #
SAM
2BAM
1916 days ago
Abhimanyu Singh
@abhimanyu
https://broadinstitute.github.io/picard/explain-flags.html What does the
SAM
flags means #
SAM
#Flag
1842 days ago
Jit
@jit.aber
Get the secondary hists reads count from
SAM
awk '{ print $2 }' out.
sam
| grep "2048" | wc -l #
SAM
#BAM #Secondary #Hits
1838 days ago
LEGE
@lege
#Estimate the #insert #size with mapped reads $ head -10000 mappings.
sam
| awk '{ if ($9 > 0) { N+=1; S+=$9; S2+=$9*$9 }} END { M=S/N; print "n="N", mean="M", stdev="sqrt ((S2-M*M*N)/(N-1))}'
1623 days ago
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