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genome

Here are 276 public repositories matching this topic...

ivanseidel / IAMDinosaur

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🦄 An Artificial Inteligence to teach Google's Dinosaur to jump cactus

neural-network genome genetic-algorithm artificial-intelligence dino google-dinosaur

Updated Feb 7, 2018
JavaScript

google / deepvariant

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DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

science machine-learning bioinformatics deep-learning genomics genome tensorflow ngs sequencing dna deep-neural-network deepvariant

Updated Sep 10, 2020
Python

primaryobjects / AI-Programmer

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Using artificial intelligence and genetic algorithms to automatically write programs. Tutorial: http://www.primaryobjects.com/cms/article149

c-sharp programming-language ai genome genetic-algorithm program-synthesis artificial-intelligence genetic-programming genetic-algorithms fitness-score

Updated Oct 1, 2018
C#

broadinstitute / gatk

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Official code repository for GATK versions 4 and up

java science bioinformatics spark genomics genome cluster ngs sequencing gatk-jar dna gatk

Updated Sep 12, 2020
Java

brentp / mosdepth

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fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

coverage nim genome sequencing depth wgs exome nim-lang

Updated Sep 12, 2020
Nim

pyGeno

tariqdaouda / pyGeno

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Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

Updated Jul 11, 2020
Python

bcgsc / abyss

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🔬 Assemble large genomes using short reads

science c-plus-plus bioinformatics genome bloom-filter assembler scaffold openmp mpi

Updated Sep 9, 2020
C++

bernatgel / karyoploteR

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karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

bioinformatics genome data-visualization rstats bioconductor genomics-visualization plotting-in-r

Updated Sep 9, 2020
R

genomepy

vanheeringen-lab / genomepy

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Download genomes the easy way.

python genome ensembl bioconda ucsc ncbi

Updated Sep 11, 2020
Python

genometools / genometools

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GenomeTools genome analysis system.

ruby python c library bioinformatics lua annotation genomics genome gff3 repeats genometools toolkit

Updated Sep 10, 2020
C

MariaNattestad / Ribbon

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A genome browser that shows long reads and complex variants better

visualization bioinformatics genomics genome ribbon htdocs-folder

Updated Aug 14, 2020
JavaScript

aquaskyline / SOAPdenovo2

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Next generation sequencing reads de novo assembler.

bioinformatics genome assembly computational-biology soapdenovo

Updated Jul 23, 2019
C

broadinstitute / viral-ngs

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Viral genomics analysis pipelines

genomics genome variant-calling bam genome-sequencing illumina fastq genome-assembly variant-annotations viral-ngs viral

Updated May 20, 2020
Python

ropensci / biomartr

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Genomic Data Retrieval with R

r genomics genome metagenomics rstats genome-annotation r-package meta-analysis genome-retrieval biomart database-retrieval ncbi-genbank ensembl-servers sequenced-genomes proteome peer-reviewed

Updated Aug 8, 2020
R

alekseyzimin / masurca

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bioinformatics genome assembly masurca

Updated Jul 20, 2020
M4

Gaius-Augustus / Augustus

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Genome annotation with AUGUSTUS

gene annotation genome discovery prediction

Updated Sep 11, 2020
C++

VariantSpark

aehrc / VariantSpark

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machine learning for genomic variants

emr aws bioinformatics gwas genome random-forest notebook vcf databricks association-studies variant-spark variantspark

Updated Sep 10, 2020
JavaScript

bcgsc / NanoSim

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Nanopore sequence read simulator

simulator genome transcriptome oxford-nanopore nanopore-sequencing

Updated Aug 9, 2020
Python

cslarsen / arv

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A fast 23andMe DNA parser and inferrer for Python

python bioinformatics snps genome dna snpedia 23andme

Updated Nov 9, 2019
C++

context

ken-reitz / context

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Raw dump of Kenneth Reitz's DNA Sequence, Ancestry, Genealogy, &c.

genome dna ancestry kennethreitz gedcom 23andme promethease gedcom-files geneology human-genome

Updated Oct 2, 2019
HTML

Nextomics / NextPolish

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Fast and accurately polish the genome generated by long reads.

genome assembly polish

Updated Sep 9, 2020

COMBINE-lab / pufferfish

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An efficient index for the colored, compacted, de Bruijn graph

genome hash index debruijn dbg contigs debruijn-graph

Updated Sep 4, 2020
C++

bcgsc / arcs

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🌈Scaffold genome sequence assemblies using linked read sequencing data

science c-plus-plus bioinformatics genome graph assembler scaffold 10xgenomics

Updated Aug 30, 2020
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genotoul-bioinfo / dgenies

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Dotplot large Genomes in an Interactive, Efficient and Simple way

bioinformatics genome inra comparision dotplot genotoul

Updated Sep 3, 2020
Python

rnabioco / valr

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Genome Interval Arithmetic in R

genome interval-arithmetic bedtools

Updated Sep 11, 2020
R

broadinstitute / catch

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A package for designing compact and comprehensive capture probe sets.

science bioinformatics genomics genome ngs sequencing metagenomics dna viral covid-19

Updated Jun 12, 2020
Python

lmdu / pyfastx

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a python package for fast random access to sequences from plain and gzipped FASTA/Q files

python genome biology assembly dna fasta sequence fastq

Updated Sep 8, 2020
C

mentatpsi / OSGenome

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An Open Source Web Application for Genetic Data (SNPs) using 23AndMe and Data Crawling Technologies

python flask snps genome genetics kendo snpedia raw-data 23andme genetic-data data-crawling

Updated Sep 9, 2019
Python

eager

nf-core / eager

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Open

Add bcftools stats module

2

jfy133 commented Dec 12, 2019

Is your feature request related to a problem? Please describe.
While currently not used in the field (AFAIK) might be worth including bcftools stats for getting statistics on VCF files from genotyping. This would help for genotyping assessiment when not using MultiVCFAnalyzer (which is only really used in aDNA pathogen work).

It would be a simple process, with input channel being VCFs and

Read more

easier-tasks enhancement good first issue

Open

Competitive mapping [Feature]

2

cggh / panoptes

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Eyes on your (genomic) data

data-science bioinformatics genome analytics

Updated Sep 9, 2020
JavaScript

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