Tim Dunn's repositories
SquiggleFilter
Hardware accelerator for real-time ReadUntil filtering of nanopore sequencing squiggles.
S4-Simple-Small-SDP-Solver
MATLAB Software for SemiDefinite Programming
DragonCompiler
PASCAL compiler implemented in C for CS445
bioconda-recipes
Conda recipes for the bioconda channel.
Clair
Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling
DecCompiler
CS445 Project, extension of BrainF*ck to decimal
DotFiles
Contains a script to regenerate all my config files including .vimrc, .bashrc
GenDP
GenDP: A Dynamic Programming Framework for Genome Sequencing Analysis
genome-data-integration
Methods to integrate data from multiple genome sequencing datasets and form consensus variant calls
lm-evaluation-harness
A framework for few-shot evaluation of autoregressive language models.
NeedleTail
long read aligner
pysam
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.
training
Nextflow training material