Pinned Repositories
adVNTR
A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data
BovinePangenome.github.io
Bovine Pan-Genome Consortium Website
bovLRC-documentation
Official documentation for BovLRC
BovLRC_workflows
KapaluaVisibility
A basic attempt to use satellite imagery to detect good conditions in Kapalua bay
pangenome_summer_school
Lectures and exercises for the 2024 Pangenome Summer in Piacenza
polyomino_core
Central repository for the lattice polyomino self-assembly model
polyomino_interfaces
Binary subsite extension to the polyomino self-assembly model
Scuba
Just some fun visualising scuba diving data
SLAM
Square Lattice Assembly Model
ASLeonard's Repositories
ASLeonard/pangenome_summer_school
Lectures and exercises for the 2024 Pangenome Summer in Piacenza
ASLeonard/adVNTR
A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data
ASLeonard/BovinePangenome.github.io
Bovine Pan-Genome Consortium Website
ASLeonard/bovLRC-documentation
Official documentation for BovLRC
ASLeonard/BovLRC_workflows
ASLeonard/calN50
Compute N50/NG50 and auN/auNG
ASLeonard/canu
A single molecule sequence assembler for genomes large and small.
ASLeonard/cramino
A *fast* tool for BAM/CRAM quality evaluation, intended for long reads
ASLeonard/danbing-tk
Toolkit for VNTR genotyping and repeat-pan genome graph construction
ASLeonard/Scuba
Just some fun visualising scuba diving data
ASLeonard/Clair3
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
ASLeonard/fastix
Prefix-renaming FASTA records really fast.
ASLeonard/gafpack
convert variation graph alignments to coverage maps over nodes
ASLeonard/gfatk
A plant organellar Graphical Fragment Assembly toolkit
ASLeonard/Jasmine
Jasmine: SV Merging Across Samples
ASLeonard/JupiterPlot
A Circos-based tool to visualize genome assembly consistency
ASLeonard/mbtools
ASLeonard/minigraph
Proof-of-concept seq-to-graph mapper and graph generator
ASLeonard/NewtonsCannonball
ASLeonard/odgi
Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs (https://doi.org/10.1093/bioinformatics/btac308)
ASLeonard/pangenie
ASLeonard/pggb
the pangenome graph builder
ASLeonard/pyfaidx
Efficient pythonic random access to fasta subsequences
ASLeonard/qtltools
A complete tool set for molecular QTL discovery and analysis
ASLeonard/RepeatMasker
RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
ASLeonard/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
ASLeonard/Sniffles
Structural variation caller using third generation sequencing
ASLeonard/SuBSeA
Package to test protein predictions through the PDB
ASLeonard/viehgenom
BPC
ASLeonard/workshop_12Jan_2023