traviswheelerlab Goto Github PK

atlas_md_download

Download MD from https://www.dsimb.inserm.fr/ATLAS/index.html

aurora

avxwindowfmindex

A fast, AVX2 and ARM Neon accelerated FM index library

bagel

A framework for benchmarking sequence search tools

bath

Better Alignments with Translated HMMER

bath-paper

covid-19

Novel Coronavirus (COVID-19) Cases, provided by JHU CSSE

deeplabcut

Markerless tracking of user-defined features with deep learning

deepvs

degpy

Python package for interacting with degu ephys data in the Insel Lab at University of Montana

dfam-portal

Angular website for Dfam resource

diplomat

Deep learning-based Identity Preserving Labeled-Object Multi-Animal Tracking (Beta)

disco

Classifies sound bursts with machine learning.

dispose

Detector of Instances of Software Plagiarism from Online-Sourced Evidence

diviner

Using Mirage2 MSAs to uncover exons hiding in plain sight

docker_skeletons

Sample docker container intended for use as starting points for more useful containers.

drug-sniffer

Sniffing out new drugs

easel

Sequence analysis library used by Eddy/Rivas lab code

easel-frahmmer

Sequence analysis library used by Eddy/Rivas lab code

easel-frahmmer-dead-end

Sequence analysis library used by Eddy/Rivas lab code

fastavector

A C library for reading/writing entire fasta files. Fasta files are loaded into internal buffers that store all headers and sequences such that each sequence and header can be found via a simple lookup function.

geomxrename

Rename files for use by GeoMX NGS Pipeline app on BaseSpace (Illumina)

gnina

A deep learning framework for molecular docking

gnina-image

A Docker image that contains gnina and its dependencies.

havac

Hardware Accellerated Viterbi Additional Coprocessor (HAVAC) is an FPGA-accellerated implementation of the Single-segment Ungapped Viterbi algorithm for use in nucleotide sequence homology search

hmmer

HMMER: biological sequence analysis using profile HMMs

hsi

A featherweight package for indexing biological sequence files and extracting subsequences.

lasso

A solution to the Unbounded Subset Sum Problem

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.

mmoreseqs

Fast/sensitive protein sequence similarity search. Slightly slower than mmseqs2, much more sensitive.