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pggb
the pangenome graph builderodgi
Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphssmoothxg
linearize and simplify variation graphs using blocked partial order alignmentimpg
implicit pangenome graphmaffer
extract MSAs from genome variation graphsvcfbub
use variant nesting information to flter overlapping sites from vg deconstruct outputpgge
the pangenome graph evaluatorpgvf-spec
Pangenome Graph Variation Format (PGVF)HPRCyear1v2genbank
building a human pangenome from the HPRCy1v2 genbank accessioned assembliespggb-workshop
tutorial on pggbspodgi
RDF and SPARQL ideas to build on top of [odgi](https://github.com/pangenome/odgi)pggb-paper
The PanGenome Graph Buildergfagino
your friendly pangenome graph genotyperpangenome.github.io
jbrowse-visualization
Workflow to visualize pggb graphs in jbrowseMemPanG23
Computational Pangenomics in Memphisgfa-wp
Convert GFA W-lines to P-linesresolve-nested-genotypes
chm13-grch38-liftover
liftover from the CHM13 T2T assembly to GRCh38 using wfmashlifetree
hard mode all genomes alignmentchromosome_communities
Recombination between heterologous human acrocentric chromosomesHPRCy1
pangenome build for HPRC year 1 samplesssfog
scale-space filtering on genome graphsrs-peanut
GAF alignment evaluation tool.mafchunk
split MAF blocks into smaller chunkssorting-paper
Path-Guided Stochastic Gradient Descent layout of pangenome graphsMHC
exploring the MHC in the HPRC year 1 samplesphage-evo-paper
Repository to store the analysis of the paper on phage evolution.seqwish-paper
Unbiased pangenome graphsgfalace
lace up GFA files using panSN path name sub-ranges to coordinate the lacingdomibubble
sketch of bubble detection via dominator treesprivacy-pangenomics
HumanPangenomeBYOD2024
Material for the Human Pangenome Bring Your Own Data (BYOD) analysis Workshop 2024, October 21-25 in Cape Town, South Africa.paf2dot
use gnuplot to generate a dotplot from sequence alignments in PAF formatodgi-paper
ODGI: understanding pangenome graphs (https://doi.org/10.1093/bioinformatics/btac308)burng
Removing complex regions from pangenome graphsodgi.github.io
ODGI suite documentation (Optimized Dynamic Genome/Graph Implementation)keane_mouse_pangenome
HPRCy1v2
pangenome build for human pangenome project year 1 genomes (version 2 assemblies)private-graphs-website
Privacy preserving graphs for pangenomicsflubble
finding single-entry single-exit bubbles in the flowgraphLove Open Source and this site? Check out how you can help us