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1000g-ont-f100-pggb

PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium

andreaguarracino.github.io

Curriculum Vitae

chain2paf

convert CHAIN format to PAF format

competitive-alignment

datastructuresforbioinformatics

Data Structures for Bioinformatics - LM Bioinformatics - University of Rome Tor Vergata

feature_level_report

gafpack

convert variation graph alignments to coverage maps over nodes

gbam

gfainject

hg002_assemblies_assessment

Pangenomic assessment of HG002 assemblies

human-pangenome-project

Human Pangenome Project

impg

implicit pangenome graph

lifetree

hard mode all genomes alignment

maftools

mashmap

A fast approximate aligner for long DNA sequences

meryl

A genomic k-mer counter (and sequence utility) with nice features.

mkmh

Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.

motifence

nucfreq

opentrons

paf2chain

convert PAF format to CHAIN format

pafgnostic

panacus

Panacus is a tool for computing statistics for GFA-formatted pangenome graphs

ratty

readcombination

referencegraphpangenomedataanalysishackathon2023

Material for the Reference Graph Pangenome Data Analysis Hackathon 2023, November 13-17 in Cape Town, South Africa

rpe1

rs-rdf

RDF library implemented in Rust

rs-spodgi

Line-by-line converter from GFA to RDF (turtle)

schematize

Visualization component of Pangenome Schematics for 1,000s of individuals and gigabase genomes.