dna-sequences 开源项目推荐（576 个）

lucidrains /enformer-pytorch

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

helicalAI /helical

A framework for state-of-the-art pre-trained bio foundation models on genomics and transcriptomics modalities.

nickpoison /astsa

R package to accompany Time Series Analysis and Its Applications: With R Examples -and- Time Series: A Data Analysis Approach Using R

Griffan /VerifyBamID

verifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.

plantcad /plantcad

PlantCAD: cross-species modeling of plant genomes

OpenHero /gblastn

G-BLASTN是一种基于广泛使用的NCBI-BLAST的GPU加速核苷酸比对工具。

BioJulia /BioAlignments.jl

Sequence alignment tools

muellan /metacache

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

smortezah /smashpp

Find and visualize rearrangements in DNA sequences

dputhier /pygtftk

A python package and a set of shell commands to handle GTF files

jvrana /benchling-api

A python wrapper for the benchling api

JinsenLi /deepDNAshape

A method to predict DNA shape features considering farther flanking region.

debbiemarkslab /variational-synthesis

Repository for the paper "Optimal design of stochastic DNA synthesis protocols based on generative sequence models" (Weinstein et al., AISTATS, 2022).

Edinburgh-Genome-Foundry /sequenticon

👾 Generate identicons for DNA sequences with Python

UC-Davis-molecular-computing /scadnano

Web application for designing DNA structures such as DNA origami.

MAGICS-LAB /GenoArmory

GenoArmory: A Unified Evaluation Framework for Adversarial Attacks on Genomic Foundation Models

graph-part /graph-part

GraphPart, a data partitioning method for ML on biological sequences

xzx0554 /EVO2-Virus

A deep learning model (EVO2-500M) for predicting host specificity of eukaryote-infecting viruses CDNA sequence

Edinburgh-Genome-Foundry /crazydoc

Read DNA sequences from colourful Microsoft Word documents

LaoZZZZZ /bartender-1.1

This bartender version could handle arbitrary length of barcode