justinashworth

AndroidMol

A GL-enabled 3D protein structure viewer for Android. Currently bare bones. Just loads PDB coordinates and lets you move and zoom in 3D via touchscreen.

cas-offinder-CFD

This is an upgraded variant of Cas-OFFinder which implements the CFD scoring matrix of Doench et al. 2016 (doi:10.1038/nbt.3437) in a tricky but very fast way to perform 'ultrafast' CFD-based site screening with much higher mismatch limits. The CFD speed-up I've added here seems to be much faster for large / high-mismatch searches

cl_images

I wrote this little cgi to save time clicking links in order to view pics on Craigslist

cmonkey-python

Python port of cMonkey, a machine-learning based method for clustering

collab

dendextendRcpp_mod

ja-scripts

pssm--

pssm++: simple, fast, precise identification of close matches to nuclease target sites in nucleotide sequences. Note that github auto-reformats the repository name to 'pssm--'. Which is hilarious.

Pymol-script-repo

Collected scripts for Pymol

PySSM

PySSM: Python user interface for finding close matches to nuclease target sites in nucleotide sequences

justinashworth/AndroidMol

A GL-enabled 3D protein structure viewer for Android. Currently bare bones. Just loads PDB coordinates and lets you move and zoom in 3D via touchscreen.

justinashworth/cmonkey-python

Python port of cMonkey, a machine-learning based method for clustering

justinashworth/cl_images

I wrote this little cgi to save time clicking links in order to view pics on Craigslist

justinashworth/ja-scripts

justinashworth/pssm--

pssm++: simple, fast, precise identification of close matches to nuclease target sites in nucleotide sequences. Note that github auto-reformats the repository name to 'pssm--'. Which is hilarious.

justinashworth/Pymol-script-repo

Collected scripts for Pymol

justinashworth/PySSM

PySSM: Python user interface for finding close matches to nuclease target sites in nucleotide sequences

justinashworth/cas-offinder-CFD

This is an upgraded variant of Cas-OFFinder which implements the CFD scoring matrix of Doench et al. 2016 (doi:10.1038/nbt.3437) in a tricky but very fast way to perform 'ultrafast' CFD-based site screening with much higher mismatch limits. The CFD speed-up I've added here seems to be much faster for large / high-mismatch searches

justinashworth/collab

justinashworth/dendextendRcpp_mod

justinashworth/fastcluster_mod

fastcluster (http://danifold.net/fastcluster.html) with some added functions for moar fast

justinashworth/fcbs

A c++ implementation of correlation distance-based hierarchical clustering (relying on fastcluster) that also performs efficient bootstrapping on larger datasets that is far faster than R's standard pvclust package. (This involves using a modified pvclust, see pvclust_mod respository)

justinashworth/portal_scripts

justinashworth/hugo-theme-puppet

justinashworth/network_vis

justinashworth/pvclust_mod

mod of pvclust R package for major efficiency/speed improvements on large datasets

justinashworth/pymol_scripts

justinashworth/subsurface

This is the official upstream of the Subsurface divelog program

justinashworth/uts-scripts