WebAssembly modules for genomics

Intervene: a tool for intersection and visualization of multiple genomic region and gene sets

Genome Interval Arithmetic in R

gia: Genomic Interval Arithmetic

Define regions in the genome

Seave is a web platform that enables genetic variants to be easily filtered and annotated with in silico pathogenicity prediction scores and annotations from popular disease databases. Seave stores genomic variation of all types and sizes, and allows filtering for specific inheritance patterns, quality values, allele frequencies and gene lists. …

Python Library for data analysis based on GMQL

RNAseq pipeline for alternative splicing junctions

Detecting transposable element invasions without repeat library. Detects also horizontal transfer events and endogenized viruses. All you need is a reference genome and some short reads

A beginner’s guide to Bioinformatics

Get exons from a transcriptome and raw genomic reads using abyss-bloom and bedtools

program to make bed12 files from bed 6 files based on the name col of the bed6 file.

A PostgreSQL plugin for bedtools, implemented in Rust.

Useful NGS utilities for everyday use in the form of stand-alone tool.

A public, web-based homozygosity mapping tool

Assembly of RNA transcriptome, differential expression analysis, identification of lncRNA candidates based on genomic context and protein coding potential.

Codes i wrote for the paper "genomic resources for Mediterranean fishes"

Predicting Tissue Specific Enhancer Activity from Epigenetic Marks and Sequence

bedtools environment containerized for singularity

An R-package for daily tasks required to handle biological data as well as avoid re-coding of small functions for quick but necessary data management.