Kyle Smith's Projects
Augmented Interval Tree implemented in Cython/C
Bayesian change point segmentation
various bioinformatic tools
Python implementation of Circular Binary Segmentation
Cell free DNA package
Python translation of the hybrid dynamicTreeCut method as created by Peter Langfelder and Bin Zhang.
Genome information
Repository for hg19 genome annotations
hg19 genome annotation
hg38 annotations
Copy Number Variation detection by HMM
Interval Frame
Segmentation of linear data
The Nested Containment List for Python. Basically an immutable interval-tree that is silly fast for both construction and lookups.
Next Generation Fragment manipulation
A collection of DataFrame-like objects for the same project
Python wrapper -- and more -- for Aaron Quinlan's BEDTools (bioinformatics tools)
Signatures of Accelerated Somatic Evolution hunter
Somatic variant identification from unpaired samples