Discovered public repositories for AngieHinrichs in the GitHub catalog.
This is a merge of AngieHinrichs/samtools (lh3/samtools patched to allow alternate network lib and not check EOF) and tabix-0.2.6 downloaded from samtools.sourceforge.net. I replaced samtools' bgzf.[ch] with tabix's because tabix's seemed more recent. Had to modify some samtools files to work with updated bgzf.h.
The Gene NEighborhood Scoring Tool (G-NEST) combines genomic location, gene expression, and evolutionary sequence conservation data to score putative gene neighborhoods across all window sizes. Primary author of final code = William F. Martin. Example data files are in the separate repository G-NEST_examples:
This is Angie Hinrichs' fork of Heng Li's lh3/samtools, which describes itself as "*NOT* the official repository of samtools"; therefore this is even less official. I have applied a patch that adds a wrapper mode to knetfile, so that alternate network libraries (such as UCSC Genome Browser's kent/src/) can be hooked in.
science project: find gene clusters for various window sizes, compute avg neighborhood correlation & p-values