Stars
A new high-resolution long-read metagenome assembler for even noisy reads
Genome modeling and design across all domains of life
🍁 Generate infrastructure and network diagrams directly from your NixOS configurations
Massively parallel phylogenetic placement of genetic sequences
Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes
RNA-seq prediction with deep convolutional neural networks.
Official repository for the paper "Learning from pre-pandemic data to forecast viral antibody escape"
AlphaFold 3 inference pipeline.
Biological foundation modeling from molecular to genome scale
ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
A fork of Prodigal meant to improve gene calling for giant viruses and viruses that use alternative genetic codes
Open source code for AlphaFold 2.
A list of deep learning implementations in biology
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hie…
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
Tensors and Dynamic neural networks in Python with strong GPU acceleration
An Open Source Machine Learning Framework for Everyone
Jupyter notebooks for the code samples of the book "Deep Learning with Python"
Applied Computational Genomics Course at UU: Spring 2020
More scalable dereplication for metagenome assembled genomes
ATLAS - Three commands to start analyzing your metagenome data
An analysis and visualization platform for 'omics data