[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome

• UpdatedDec 14, 2024
• Shell

Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files

• UpdatedAug 30, 2021
• Jupyter Notebook

PromKappa 1.0 is a complete application made in Visual Basic 6.0 (VB6) that generates Objective Digital Stains (aka DNA patterns).

• UpdatedNov 18, 2022
• Visual Basic 6.0

Bioinformatics N' Stuff

• UpdatedSep 6, 2018
• Shell

PromKappa 3.0 is a complete application made in Visual Basic 6.0 (VB6) that generates Objective Digital Stains (aka DNA patterns). The main output of the application consists of a series of images that are saved in the 'chart' (or 'chart_comp') folder and which can be later analyzed using different methods.

• UpdatedNov 17, 2022
• HTML

This repository contains custom code used for analysis in El Ghamrasni et al.,

• UpdatedApr 26, 2021
• R

Python second-order approximation to the PromoterHunter code

• UpdatedJan 24, 2023
• Python

Workflow to identify functional cis-regulatory regions for each annotated cell type

• UpdatedApr 17, 2024
• Python

Yeast pathway kit promoter and terminator vectors and other related public information. Do not put secret information here.

• UpdatedNov 8, 2024
• Jupyter Notebook

The Genomic Variations Explorer (GenVarX) is a toolset that consists of promoter region component and CNV component for users to perform queries, visualize data, and conduct annotations using genotypic and phenotypic differences.

• UpdatedFeb 19, 2024
• JavaScript

The Eukaryotic Promoter Database (EPD) website

• UpdatedMar 14, 2025
• JavaScript

The Soybean Genomic Variations Explorer (Soybean GenVarX) is a toolset that consists of promoter region component and CNV component for users to perform queries, visualize data, and conduct annotations using genotypic and phenotypic differences.

• UpdatedFeb 17, 2025
• PHP