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Data files were loaded and analyzed with R (v2.9.2) and Bioconductor (v2.4.1) [18], using the NylonArray library developed by the TAGC to support BZScan2 files (library available upon request).
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The source code of the complete library is available upon request.
The library is available upon request.
The implementation of the scoring algorithm with the spanion library is available upon request in Linux binary format.
Details of small RNA library preparation protocol are available upon request.
The analyses were performed in R [ 33] using a library written by FIL (freely available upon request) to perform the structure search.
The cDNAs libraries and/or the clones are available upon request from the DNA Bank, RIKEN BioResource Center (RDB no. 6388 6392).
A specific R library, 'nylonmagic' (currently under development, script available upon request), that uses the 'S4' system of formal classes and methods was used to process and normalize nylon microarray data [25].
Java libraries for constructing image scrapers are available upon request.
All statistical and morphometric analyzes were performed using R v 2.13.1 [ 83], with the 'ade4' [ 90], 'ape' [ 91], 'Rmorph' [ 82] libraries and newly designed R functions (available upon request).
The cDNA phage library and individual clones generated in this study are available upon request.
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