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Old 01-27-2016, 02:15 AM   #1
JakobHedegaard
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Location: Aarhus, Denmark

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Default Selection of indexes

Hi,
How to select an optimal set of indexes from different library prep kits to design a sequence run?
An example: I am about to prepare libraries and sequence 40 samples prepared with XT dual indexing and 21 libraries prepared with single indexes (ScriptSeq).
Given a set of 8 i7 indexes from the XT libraries the task is to select a set 21 index among 48 available that will differ on at least two positions relative to the 8 i7 indexes.
It is quite tedious and error-prone to do this manually.
Does anyone have a piece of script to do this?
Or how do you select an optimal set of indexes?
Cheers,
/Jakob
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Old 01-27-2016, 05:29 AM   #2
JakobHedegaard
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Default

Hi again,
I have made a small R script (attached, "compare_index_Rscript.txt") to compare two lists of indexes (equal index length) and return the number of different positions per combination - thereby making it possible to select the most diverse sets.
Cheers,
/Jakob
Attached Files
File Type: txt compare_index_Rscript.txt (2.5 KB, 10 views)

Last edited by JakobHedegaard; 01-27-2016 at 05:31 AM.
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