AlphaFold 3 inference pipeline.

TE Classifier Using CNN

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered polymorphisms in read sets using genome-graphs.

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

This API provides programmatic access to the AlphaGenome model developed by Google DeepMind.

Foundation Models for Genomics & Transcriptomics

Transposable Elements MOvement detection using LOng reads

A Forward Simulation Framework for Studying the Role of Transposable Elements in Genome Expansion and Contraction

BioReason: Incentivizing Multimodal Biological Reasoning within a DNA-LLM Model

A pipeline to detect chimeric transcripts derived from genes and transposable elements.

This repository summarizes scrips and analysis run on the genomes of Arachnopeziza aurata and A. aurelia.

🆙 Upscayl - #1 Free and Open Source AI Image Upscaler for Linux, MacOS and Windows.

TEtrimmer: a novel tool to automate manual curation of transposable elements

The ECCsplorer is a bioinformatics pipeline for the automated detection of extrachromosomal circular DNA (eccDNA) from paired-end read data of amplified circular DNA.

Identification of transposable element families from pangenome polymorphisms

Snakemake pipeline to analyze transposable element 'omics data.

tools for working with genome variation graphs

High-precision TE Annotator

A modern and customizable python UI-library based on Tkinter

HELIANO is a software for detection and classification of Helitron-like elements.

Earl Grey: A fully automated TE curation and annotation pipeline

Annotation helper tool for the manual curation of transposable element consensus sequences

Extensive de-novo TE Annotator