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hiReadsProcessor

eagle-i ID

http://eagle-i.itmat.upenn.edu/i/0000013a-d1a8-6fd1-d69a-d90d80000000

Resource Type

  1. Algorithmic software component

Properties

  1. Resource Description
    "hiReadsProcessor contains set of functions which allow users to process single-end LM-PCR sequence data coming out of the 454 sequencer. Given an excel file containing parameters for demultiplexing and sample metadata, the functions automate trimming of adaptors and identification of the genomic product. In addition, if IntSites MySQL database is setup, the sequence attrition is loaded into respective tables for post processing setup and analysis."
  2. Used by
    Bushman Laboratory
  3. Data Input
    List of sequencing files (raw 454 sequence data)
  4. Data Input
    Sample information table for sequencing files
  5. Data Output
    Table of genomic locations (ready for hiAnnotator)
  6. Website(s)
    https://github.com/malnirav/hiReadsProcessor
  7. Related Technique
    Next generation DNA sequencing
  8. Developed by
    Malani, Nirav, M.S.
  9. Coded in
    R language
 
RDFRDF
 
Provenance Metadata About This Resource Record
  1. workflow state
    Published
  2. contributor
    fcoldren
  3. created
    2012-11-05T12:48:09.956-05:00
  4. creator
    fcoldren
  5. modified
    2013-04-02T12:42:05.656-04:00

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