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There are two output options for BaseQC.
There are two output options for BaseQC.
#Percentages
#[[#Percentage-Based Output Format|Percentage-Based Output Format]]
#Straight Counts
#[[#Count-Based Output Format|Count-Based Output Format]]
==== Percentage-Based Output Format ====
==== Percentage-Based Output Format ====
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This output does not include a MapQual255 count in version 1.0.
This output does not include a MapQual255 count.
===== Sample Output =====
===== Sample Output =====
</pre>
</pre>
==== Count-Based Output Format ====
==== Count-Based Output Format ====
Order/Descriptions:
{|border=1
{|border=1
! Field !! Description !!style="width: 80px"| Excludes Duplicates, QC Failures !!style="width: 80px"| Excludes Unmapped !!style="width: 80px"| Excludes MapQual = 255 !!style="width: 80px"| Excludes Below Min MapQual
! Field !! Description !!style="width: 80px"| Excludes Duplicates, QC Failures !!style="width: 80px"| Excludes Unmapped !!style="width: 80px"| Excludes MapQual = 255 !!style="width: 80px"| Excludes Below Min MapQual
