ANGSD: Analysis of next generation Sequencing Data

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Base quality

From angsd
Revision as of 16:22, 19 September 2012 by Albrecht (talk | contribs) (→‎Example)
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Counts the number of bases for each quality score.

-doQsDist 1

Example

Print the number of 

./angsd -out out -doCounts 1 -doQsDist 1 -bam bam.filelist

output

First coloums is the quality score the second one the number of bases with this score. 

0       3113
1       15619
2       97044
3       68369
4       117163
5       12149
6       15016
7       17982
8       21897
9       26471
10      31854
11      36491
12      41649
13      47400
14      53778
15      61933
16      73120
17      87034
.
.
.
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