ld-tools: toolkit for linkage disequilibrium calculation designed to work locally

Small program to mask positions that are likely to result in PMD artifact from a BAM file using a predefined SNP catalog

Annotation pipeline for HPDS

Сompute support for ALT and REF alleles from aligned reads

Progetto di Elementi di Bioinformatica, A.A. 2021/2022

Tools to discover natural selection given multiple evolved DNA sequences (e.g., gnomad cohort, or multiple tumor samples)

Projects realized during Computational Genomics course.

Investigating unmapped reads within next generation sequencing data will provide additional information regarding the source of the trace microbial reads.

Various scripts for working with NGS data in file formats such as VCF, BAM/SAM, and JSON

Pysam module (python2.7) singularity container

Bioinformatics CLI tool to generate WIG tracks from SAM/BAM files

vue app with flask REST api to process genomic data

Pure-Rust BAM/VCF/BCF depth, pileup, variants & stats with Python bindings — native Linux/macOS/Windows wheels, pysam-parity, no htslib.

Cloud-based energy infrastructure modeling, simulation, and scenario-planning platform.

Structural variant analysis of common disease-associated genes in 1000 Genomes long-read sequencing data

Nanopore long-read analysis of microRNA editing regions (MREs) in 1000 Genomes samples — read-length distributions, haplotype sorting, and cloning candidate selection.

Per-position and summary statistics for BAM files