Statistics for topic genomics
RepositoryStats tracks 518,325 Github repositories, of these 288 are tagged with the genomics topic. The most common primary language for repositories using this topic is Python (88). Other languages include: C++ (32), R (26), Jupyter Notebook (23), C (15), Java (12), Rust (11)
Stargazers over time for topic genomics
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Trending repositories for topic genomics (view more)
Official git repository for Biopython (originally converted from CVS)
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Merging, Annotation, Validation, and Illustration of Structural variants
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
Python library to facilitate genome assembly, annotation, and comparative genomics
🧬 Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics
Command line utility for manipulating Illumina-generated FASTQ files.
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
🧬 o r t h o g e n e 🧬✨✨✨✨✨✨✨ Interspecies gene mapping✨✨✨✨✨ 🦠 🔁 🌱 🔁 🌳 🔁 🍎 🔁 🍊 🔁 🪱 🔁 🪰 🔁 🐟 🔁 🦎 🔁 🐓 🔁 🦇 🔁 🐄 🔁 🐖 🔁 🐐 🔁 🐎 🔁 🐈 🔁 🐕 🔁 🐁 🔁 🐒 🔁 🦧 🔁 🦍 🔁 🏃♀️
Official git repository for Biopython (originally converted from CVS)
LongcallR is a small variant caller for single molecule long-read RNA-seq data
Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
ClairS - a deep-learning method for long-read somatic small variant calling
ClairS-TO - a deep-learning method for tumor-only somatic variant calling
Command line utility for manipulating Illumina-generated FASTQ files.
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal sequencing data.
My own attempt at a long context genomics model, leveraging recent advances in long context attention modeling (Flash Attention + other hierarchical methods)
Official git repository for Biopython (originally converted from CVS)
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
Read specialized NGS formats as data frames in R, Python, and more.
My own attempt at a long context genomics model, leveraging recent advances in long context attention modeling (Flash Attention + other hierarchical methods)
🌿: GIS for philological, archaeological, and anthropological data.