A Python script to filter and extract information from GTF files based on chromosome names, designed to be easily accessible for biologists without extensive programming experience.

Exon BED Generator: A script to download, process, and generate a BED file with exon coordinates for Homo sapiens from a GTF file

An open-source Java tool to automatically extract and convert all clinical and genomic data from the Genomic Data Commons to BED, GTF, CSV, and JSON format

GTF parser for Java Dataframes

Convert gtf to gff3 for JBrowse

A simple CLI utility to convert a GTF file to NDJSON for fast parsing

This project consists of a Python script designed to convert coding sequences found in a GTF (Gene Transfer Format) file to protein sequences in the FASTA format. The code was developed as part of a university project for genomic sequence analysis.

Custom python scripts useful for working with genome assemblies and annotations

Gene Info Extractor: A Python script to extract gene information and annotations from CSV data

Bioinformatics

An introduction to RNA-seq file formats, quality control, and visualization targeted to a biologist audience

An R package allowing flexible base trimming and complete Fastq analysis on Windows System

factR: Functional Annotation of Custom-assembled Transcripts in R

Management of References for Yourself

Gexplora - user-interface to analyse genomic elements along chromosomes

An installer for GTF (command line installer) simplifies software installation & dependency management for developers, beginners, and admins. It's a quick & automated way to install software, making it an essential tool in any deployment or dev pipeline, particularly for automating the installation process and avoiding delays.