Difference between revisions of "CIMS"

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==Required Modules==
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==Environment Modules==
 
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
===Serial===
 
* {{#var:app}}
 
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* intel
 
* {{#var:app}}
 
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* intel
 
* openmpi
 
* {{#var:app}}
 
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==System Variables==
 
==System Variables==
* HPC_{{uc:{{#var:app}}}}_DIR
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
* HPC_{{uc:{{#var:app}}}}_BIN
 
* HPC_{{uc:{{#var:app}}}}_BIN
 
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=Validation=
 
* Validated 4/5/2018
 

Latest revision as of 17:21, 10 June 2022

Description

CIMS website  

Crosslinking induced mutation site or CIMS analysis is a computational method to analyze HITS-CLIP data for determining the exact protein-RNA crosslink sites and thereby mapping protein-RNA interactions at the single-nucleotide resolution. This method is based on the observation that UV cross linked amino-acid-RNA adduct introduce reverse transcription errors in cDNAs at certain frequencies, which are captured by sequencing and comparison of CLIP tags with the reference genome. More details can be found in the following reference:

Environment Modules

Run module spider CIMS to find out what environment modules are available for this application.

System Variables

  • HPC_CIMS_DIR - installation directory
  • HPC_CIMS_BIN