Wheeler Lab

Pinned Repositories

AvxWindowFmIndex
A fast, AVX2 and ARM Neon accelerated FM index library
Language:C31 6 195
BATH
Better Alignments with Translated HMMER
Language:C15 5 83
DIPLOMAT
Deep learning-based Identity Preserving Labeled-Object Multi-Animal Tracking (Beta)
Language:Python7 3 32
drug-sniffer
Sniffing out new drugs
Language:HTML21 5 149
Mirage
Mirage generates multiple sequence alignments of proteoforms by mapping sequences back to their coding regions on the genome and then compressing those mappings into alignments.
Language:Perl9 5 184
nail
Nail is an Alignment Inference tooL
Language:Rust42 5 42
NEAR
Language:Makefile2 2 10
polyA
Automatically Adjudicate Any And All Arbitrary Annotations, Astutely Adjoin Abutting Alignments, And Also Amputate Anything Amiss (AAAAAAAAAAAAAAAA)
Language:Python8 6 192
sufr
Parallel Construction of Suffix Arrays in Rust
Language:Rust10 3 11
ULTRA
ULTRA Locates Tandemly Repetitive Areas
Language:C++24 7 294

Wheeler Lab's Repositories

TravisWheelerLab/drug-sniffer
Sniffing out new drugs
Language:HTML21 5 149
TravisWheelerLab/disco
Classifies sound bursts with machine learning.
Language:Python4 6 60
TravisWheelerLab/gnina-image
A Docker image that contains gnina and its dependencies.
Language:Dockerfile2 5 20
TravisWheelerLab/bagel
A framework for benchmarking sequence search tools
Language:Python1 4 4
TravisWheelerLab/DeepLabCut
Markerless tracking of user-defined features with deep learning
Language:Python1 3 0
TravisWheelerLab/DISPOSE
Detector of Instances of Software Plagiarism from Online-Sourced Evidence
Language:Java1 4 5
TravisWheelerLab/gnina
A deep learning framework for molecular docking
Language:C++1 3 0
TravisWheelerLab/mmoreseqs
Fast/sensitive protein sequence similarity search. Slightly slower than mmseqs2, much more sensitive.
Language:Rust1 2 00
TravisWheelerLab/mmoreseqs-legacy
Pruned Forward-Backward implementation of profile HMM alignment
Language:C1 4 31
TravisWheelerLab/shopty
Simple Hyperparameter OPTimization in pYthon
Language:Python0 2 10
TravisWheelerLab/COVID-19
Novel Coronavirus (COVID-19) Cases, provided by JHU CSSE
2 0
TravisWheelerLab/degpy
Python package for interacting with degu ephys data in the Insel Lab at University of Montana
Language:Jupyter Notebook3 01
TravisWheelerLab/Dfam-Portal
Angular website for Dfam resource
Language:TypeScript2 0
TravisWheelerLab/docker_skeletons
Sample docker container intended for use as starting points for more useful containers.
4 0
TravisWheelerLab/easel-FraHMMER
Sequence analysis library used by Eddy/Rivas lab code
Language:C1
TravisWheelerLab/easel-FraHMMER-dead-end
Sequence analysis library used by Eddy/Rivas lab code
TravisWheelerLab/hsi
A featherweight package for indexing biological sequence files and extracting subsequences.
Language:C4 0
TravisWheelerLab/LASSO
A solution to the Unbounded Subset Sum Problem
Language:C1 0
TravisWheelerLab/nextflow_skeletons
Sample Nextflow workflows intended for use as starting points for more useful workflows.
Language:Nextflow4 0
TravisWheelerLab/Opalv3
Commit fb6f5e6a00044be94050c5979812d366a76963cf is most recent stable copy
Language:Java2 0
TravisWheelerLab/smas
Stoichiometric MAtrix Solver
Language:Rust2 0
TravisWheelerLab/transmark
Creates DNA background sequence benchmark and runs HMMER translated search and other tools and compares results via plots
Language:Perl5 2
TravisWheelerLab/uhoh
A simple tool to back up GitHub repositories.
Language:Dart4 1
TravisWheelerLab/ultra-soda
Language:TypeScript4 0