Brendan's repositories
gym-minigrid
Minimalistic gridworld package for OpenAI Gym
BioAlignments.jl
Sequence alignment tools
BMFtools
Barcoded Molecular Families
dx-toolkit
DNAnexus platform client libraries.
GeneticVariation.jl
Datastructures and algorithms for working with genetic variation
gym-bandits
Bandits Environments for the OpenAI Gym
htsjdk
A Java API for high-throughput sequencing data (HTS) formats.
kmer_sniper
kmer analysis of sequence and bed files
langchain
⚡ Building applications with LLMs through composability ⚡
maxentpy
Python wrapper for MaxEntScan to calculate splice site strength.
MidJourney-Styles-and-Keywords-Reference
A reference containing Styles and Keywords that you can use with MidJourney AI. There are also pages showing resolution comparison, image weights, and much more!
mosdepth
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
openslide-python
Python bindings to OpenSlide
picard
A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.github.io/hts-specs) format.
pysam
Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.
SWXMLHash
Simple XML parsing in Swift
TensorFlow-Examples
TensorFlow tutorials and code examples for beginners
VarViewer
GWT viewer for NGS variant files
vecaln
NGS short read alignment with vector dbs
vgraph
vgraph is a command line application and Python library to compare genetic variants using variant graphs. ``vgraph`` utilizes a graph representation of genomic variants in to precisely compare complex variants that are refractory to comparison by conventional comparison methods.
WranglerView
Dynamic web viewer and scheduler for java jobs
XAM.jl
Parse and process SAM and BAM formatted files