文件列表:

LICENSE (1094, 2021-11-05)
cross_contamination.pl (4542, 2021-11-05)
demultiplexing_report_B52992.txt (8221515, 2021-11-05)

# Index swapping ## Synopsis This repository provides a perl script for identifying cross-contamination events that occurred between double-index libraries due to index swapping during library amplification or sequencing: ```sh cross_contamination.pl ``` The script includes a help menu with further instructions and explanations (accessible by executing the script without specifying an input file). ## Software Dependencies The script has been successfully used with perl 5 (version 30) and has no further dependencies on perl modules or external software. ## Example In what follows we provide an example for how this script was used to determine cross-contamination using a demultiplexing report file formatted as described in the help menu of the script. The exemplary input file (`demultiplexing_report_B52992.txt`) is provided as part of the documentation. ```sh ./cross_contamination.pl demultiplexing_report_B52992.txt >report_file.txt ``` This script generates text output on the shell (identified cross-contamination events: (i) by event, and (ii) by library), which can be redirected to a file as indicated above.

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