Posts tagged ‘software’

• The FASTQ file format for sequences - September, 2008
  software, shell, EST

  The FASTQ format is the format of choice for most new sequencing technologies. Here, we implement a Haskell parser, and look at some ..uh, interesting properties of the format and its implementations.
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• Updates and other trivialities - July, 2008
  software, hpc

  A brief overview over software updates and some other notes. Imported from my old Wordpress blog in order to preserve it for posteriority, and to make Google Webmaster tools happy. Links have been changed to protect the guilty...uh, I mean, improve the reader experience.
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• Functional bash bracketing - July, 2008
  software, shell, EST

  My current development project is an EST pipeline. For various reasons, it is implemented in shell --- bash, to be exact. In other words, the pipeline is a script, or rather a set of scripts, that will tie together the various stages: masking, clustering, assembly, and annotation.
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