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KaryoploterkaryoploteR - An R/Bioconductor package to plot arbitrary data along the genome
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GenometoolsGenomeTools genome analysis system.
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RibbonA genome browser that shows long reads and complex variants better
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Viral NgsViral genomics analysis pipelines
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Soapdenovo2Next generation sequencing reads de novo assembler.
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BiomartrGenomic Data Retrieval with R
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AugustusGenome annotation with AUGUSTUS
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Arcs🌈Scaffold genome sequence assemblies using linked read sequencing data
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GatkOfficial code repository for GATK versions 4 and up
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Ai ProgrammerUsing artificial intelligence and genetic algorithms to automatically write programs. Tutorial: http://www.primaryobjects.com/cms/article149
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16gtSimultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
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Metacachememory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
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Mosdepthfast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
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PygenoPersonalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
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Iamdinosaur🦄 An Artificial Inteligence to teach Google's Dinosaur to jump cactus
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GenomeAnalysisModuleWelcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.
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pblatparallelized blat with multi-threads support
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companionThis repository has been archived, currently maintained version is at https://github.com/iii-companion/companion
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catchA package for designing compact and comprehensive capture probe sets.
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perfPERF is an Exhaustive Repeat Finder
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MUMandCoMUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation
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Scaff10XPipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads
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revealGraph based multi genome aligner
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pufferfishAn efficient index for the colored, compacted, de Bruijn graph
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SynNet-PipelineWorkflow for Building Microsynteny Networks
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semanticSuperPhy for the semantic web
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polioResearch on polio / protein folding.
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dcHiCdcHiC: Differential compartment analysis for Hi-C datasets
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SARS-CoV-2-Sequenzdaten aus DeutschlandDas Robert Koch-Institut stellt Systeme zur bundesweiten molekularen Surveillance des SRARS-CoV-2-Virus bereit. Jedes Labor in Deutschland, das SARS-CoV-2 sequenziert, ist laut der Verordnung zur molekulargenetischen Surveillance des Coronavirus SARS-CoV-2 verpflichtet, dem Robert Koch-Institut die Sequenz- und zugehörige Metadaten zu übermittel…
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pyrodigalCython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
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NanoSimNanopore sequence read simulator
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arvA fast 23andMe DNA parser and inferrer for Python
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valrGenome Interval Arithmetic in R
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LTRpredDe novo annotation of young retrotransposons
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MGSEMapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.
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genome updaterBash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy
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Abyss🔬 Assemble large genomes using short reads
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