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abricate

:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes

alphafold2

To eventually become an unofficial Pytorch implementation / replication of Alphafold2, as details of the architecture get released

arg-global

Antibiotic resistance genes (ARGs) have accelerated microbial threats to human health during the last decade. Here we determined the risk of ARGs from multiple perspectives by using these code.

args_oap

ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Database

atlas

ATLAS - Three commands to start analysing your metagenome data

bioinfo_course_python

cap2

cas13

chip-seq-analysis

ChIP-seq analysis notes from Ming Tang

dataanalysisfor2cchip

dataanalysisforchilt

deep-reinforcement-learning-algorithms-with-pytorch

PyTorch implementations of deep reinforcement learning algorithms and environments

deep-review

A collaboratively written review paper on deep learning, genomics, and precision medicine

deeparg2.0

deepARG using deep semantic representation

deepgo

Function prediction using a deep ontology-aware classifier

distribution-is-all-you-need

The basic distribution probability Tutorial for Deep Learning Researchers

dna-diffusion

🧬 Understanding the code of life: Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨

embeddings_reproduction

external-attention-pytorch

🍀 Pytorch implementation of various Attention Mechanisms, MLP, Re-parameter, Convolution, which is helpful to further understand papers.⭐⭐⭐

global-bacterial-diversity-in-wwtps

gtdbtk

GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.

hifun

Homology Independent Protein Function prediction on Protein-Language Self-Attention Model

iggdb

Database of genomes integrated from the gut microbiome and other environments

math_seq2tree

Seq2Tree model for Solving Math Word Problems

metagenomicantibioticresistance

NastyBugs: a simple method for extracting antimicrobial resistance information from metagenomes

mgv

Supporting code for uncultivated gut virus manuscript

mouse_immunity

nlp-tutorial

Natural Language Processing Tutorial for Deep Learning Researchers

nsclc_tmi

ocean_resistome

resistome on TARA ocean samples