genome-graph

There are 5 repositories under genome-graph topic.

vgteam / vg
tools for working with genome variation graphs
dna genome-graph genomics graph variation-graph
Language:C++ 1080
lh3 / minigraph
Sequence-to-graph mapper and graph generator
bioinformatics genome-graph genomics pan-genome sequence-alignment
Language:C 397
lh3 / gfatools
Tools for manipulating sequence graphs in the GFA and rGFA formats
bioinformatics genomics genome-graph
Language:C 203
mcveanlab / mccortex
De novo genome assembly and multisample variant calling
genome-assembly de-bruijn-graphs kmer cortex variant-calling genome-graph contigs genome-analysis genomics
Language:C 112
iqbal-lab-org / gramtools
Genome inference from a population reference graph
bioinformatics c-plus-plus embl-ebi genome-graph prg python reference-graph variant-calling
Language:C++ 92
MoMI-G / MoMI-G
Modular Multi-scale Integrated Genome Graph Browser
genome-browser genome-graph graph-genome-browser structural-variants variation-graph
Language:TypeScript 85
BioJulia / GenomeGraphs.jl
A modern genomics framework for julia
bioinformatics biology bio julia bioinformatics-analysis genomics genome-sequencing genome-assembly genome-graph genomes
Language:Julia 67
cccnrc / plot-VCF
visual analysis of your VCF files
genetics genome genome-analysis genome-graph graph graphics graphics-programming plot plot-generator variant-analysis variant-annotations variants vcf vcf-files visual-analysis visualization
Language:R 24
ChaissonLab / danbing-tk
Toolkit for VNTR genotyping and repeat-pan genome graph construction
genome-graph vntr genotyping graph-aligner tandem-repeats
Language:Python 21
edawson / svaha2
Linear-time, low-memory construction of variation graphs
genomics genome-graph gfa variation-graph structural-variation
Language:C++ 18
ratschlab / genome_graph_annotation
Sparse Binary Relation Representations for Genome Graph Annotation
binary-relations genome-graph graph-annotation binary-matrices sparse-matrices de-bruijn-graphs
Language:C++ 4
JerryPan2718 / Microbiome-PTR
Calculate Peak-to-Trough Ratio (PTR), plot coverage graph, and perform quality control over contigs in a single pipeline integrating Glimmer3, Bowtie2, Sickle, and algorithms in R.
microbiota bam sam r genome-alignment genome-graph genomics sequence genome-preprocessing pipeline
Language:C 2
RolandFaure / GenomeTailor
Modifies an assembly with sequencing reads to ensure all reads align end-to-end on the assembly
genome-assembly genome-graph
Language:C++ 2
jachansantiago / vg_recal
This is experiment to measure performance in vg recalibrate, testing different models.
vg mapping-quality-recalibration variation-graph genome-graph machine-learning dna genomics
Language:Jupyter Notebook 1
maingoc303 / Graph_Genome
ngs-pipeline genome-graph multiple-sequence-alignment biopython-library bioinformatics-pipeline
Language:HTML 0
cartoonist / gcsa-locate
Locate k-mers in variation graphs using GCSA2
gcsa genome-graph
Language:M4
gauravcodepro / miniprot-protein-annotator
from protein alignments to deep learning preparatory.
bioinformatics genome-alignment genome-annotation genome-assembly genome-graph protein-sequences
Language:Python
jlboat / VGTool
A tool for modelling graphs of genetic variation.
dna genome-graph genomics graph variation-graph
Language:Java