Stars
ProtNote is a multimodal deep learning model that leverages free-form text to enable both supervised and zero-shot protein function prediction
Recentrifuge: robust comparative analysis and contamination removal for metagenomics
Tools for processing and analyzing the output of Conterminator
Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.
Integrated computational design of gene entanglements
metagenome simulation for targeted and reduced-representation sequencing
multiple GNOME terminals in one window
Python bindings for the BLAKE3 cryptographic hash function
Protein Annotation by Residue-Specific Enrichment: a site-based statistical method for interpretable protein function annotation
Collection of library stubs for Python, with static types
LucaProt: A novel deep learning framework that incorporates protein amino acid sequence and structural information to predict protein function.
Fully convolutional deep learning variant effect predictor architecture
A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.
Binary encoding with base-2048 in Python with Rust
Binary-to-text encoding highly optimised for UTF-16
π Parameterize, execute, and analyze notebooks
SingularityCE is the Community Edition of Singularity, an open source container platform designed to be simple, fast, and secure.
Pod5: a high performance file format for nanopore reads.
a tool for simulating nanopore raw signal data
π€ Transformers: the model-definition framework for state-of-the-art machine learning models in text, vision, audio, and multimodal models, for both inference and training.
LoFreq Star: Sensitive variant calling from sequencing data