calvinhuapeng/capturec

CaptureC analysis code by James Davies - to serve as supplements to the publication.

captureC

CaptureC analysis code by James Davies - to serve as supplements to the publication.

1. You need these three scripts to run the analysis :

dpngenome3_1.pl (generates RE digestion fragments for your genome of interest)

dpnII2E.pl (generates RE digestion fragments for your sample)

CCanalyser2.pl (the master captureC analyser)

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2. The user manuals :

2a) WholeAnalysisPipelineUserManual.pdf

How to run the whole analysis, starting from fastq files and ending with ready-to-load visualisation files and run statistics. Includes instructions to modify the code to suit your own running environment, and a short trouble-shooting section.

2b) CCanalyser2_help_command_printout.pdf

Printout of the CCanalyser2.pl help command : lists available options and how to use the script. Use the above full pipeline manual along-side this listing, to troubleshoot your installation.