In single-end sequencing, the sequencer reads a fragment from only one end to the other, generating the sequence of base pairs. In paired-end reading it starts at one read, finishes this direction at the specified read length, and then starts another round of reading from the opposite end of the fragment.
-id:markdups
type:select
required:true
...
...
@@ -106,7 +107,7 @@ workflow_parameters:
-['mark','RemoveDuplicates']
-['keep','KeepAllSequences']
description:|
Duplicate reads are defined as originating from the same original fragment of DNA. Duplicates are identified as read pairs having identical 5' positions (coordinate and strand) for both reads in a mate pair and optionally, matching unique molecular identifier reads.
Duplicate reads are defined as originating from the same original fragment of DNA. Duplicates are identified as read pairs having identical 5-prime positions (coordinate and strand) for both reads in a mate pair and optionally, matching unique molecular identifier reads.