www.molpopgen.org

Website for Kevin Thornton's lab at UC Irvine


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Data

UPDATE: due to security concerns, I’ve had to make the server where we’ve been serving up data non-public. I’m in the process of unloading many of these data sets to Google Drive, and will update links accordingly. In the mean time, send me (KRT) and email, and I’ll prioritize getting what you need back online.

This page lists sequence data, alignments, etc., resulting from lab publications. A lot of our ouptut is software, which you can find at our software page.

2015

2014

2013

NOTE (Nov. 17, 2014): the pipeline code linked to below is being re-implemented. Please keep track of the pecnv package, which will integrate our existing CNV-calling code from PE mapping with the TE calling pipeline. The current “dev” branch of that repo re-implements the presence/absence part of the pipline in a more streamlined manner. This code will eventually become release pecnv-0.1.4.

UPDATE Nov. 21, 2014): pecnv version 0.1.4 is released, and replaces numbers 1 and 4 in the list below with a C++ reimplentation of the presence/absence calling software.

  1. Pipeline code for calling TE presence/absence
  2. Pipeline code for annotating TE calls
  3. Regions of high IBD in the DGRP lines
  4. A version of the pipeline + an example data set.

2006

2005