Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
R package to accompany Time Series Analysis and Its Applications: With R Examples -and- Time Series: A Data Analysis Approach Using R
A framework for state-of-the-art pre-trained bio foundation models on genomics and transcriptomics modalities.
VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
G-BLASTN is a GPU-accelerated nucleotide alignment tool based on the widely used NCBI-BLAST.
Sequence alignment tools
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
Find and visualize rearrangements in DNA sequences
👾 Generate identicons for DNA sequences with Python
GenoArmory: A Unified Evaluation Framework for Adversarial Attacks on Genomic Foundation Models
A deep learning model (EVO2-500M) for predicting host specificity of eukaryote-infecting viruses CDNA sequence
Repository for the paper "Optimal design of stochastic DNA synthesis protocols based on generative sequence models" (Weinstein et al., AISTATS, 2022).
Bioinformatics 2020: Graph Neural Networks for DNA Sequence Classification
A method to predict DNA shape features considering farther flanking region.
Read DNA sequences from colourful Microsoft Word documents
This bartender version could handle arbitrary length of barcode
Binomica Public Repository for Biological Parts
GraphPart, a data partitioning method for ML on biological sequences
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