genomics

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Here are 1,908 public repositories matching this topic...

biopython / biopython

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Official git repository for Biopython (originally converted from CVS)

python bioinformatics genomics protein-structure dna protein biopython phylogenetics sequence-alignment

Updated Oct 8, 2022
Python

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 Jun 13, 2022
Python

broadinstitute / gatk

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Official code repository for GATK versions 4 and up

science bioinformatics spark genomics genome ngs sequencing dna gatk

Updated Oct 7, 2022
Java

lh3 / minimap2

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A versatile pairwise aligner for genomic and spliced nucleotide sequences

bioinformatics genomics sequence-alignment spliced-alignment

Updated Oct 7, 2022
C

greenelab / deep-review

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A collaboratively written review paper on deep learning, genomics, and precision medicine

review deep-learning genomics neural-networks manuscript manubot

Updated Dec 28, 2021
HTML

lh3 / bwa

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Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

bioinformatics genomics sequence-alignment fm-index

Updated Sep 22, 2022
C

galaxyproject / galaxy

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Data intensive science for everyone.

docker science workflow bioinformatics pipeline genomics workflow-engine ngs sequencing dna usegalaxy hacktoberfest

Updated Oct 8, 2022
Python

bigdatagenomics / adam

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ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.

python java bioinformatics r scala big-data spark avro genomics parquet

Updated Jun 10, 2022
Scala

vgteam / vg

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tools for working with genome variation graphs

genomics graph dna variation-graph genome-graph

Updated Oct 7, 2022
C++

hail-is / hail

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Scalable genomic data analysis.

python bioinformatics gwas scala spark genomics genetics vcf software hail

Updated Oct 8, 2022
Python

google / nucleus

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Python and C++ code for reading and writing genomics data.

bioinformatics genomics tensorflow dna

Updated Dec 9, 2021
C++

kblin / ncbi-genome-download

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Scripts to download genomes from the NCBI FTP servers

python bioinformatics genomics command-line biology genbank ncbi download-genomes

Updated Dec 1, 2021
Python

seq-lang / seq

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A high-performance, Pythonic language for bioinformatics

python programming-language bioinformatics compiler genomics computational-biology domain-specific-language

Updated Jul 27, 2022
C++

bwa-mem2 / bwa-mem2

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The next version of bwa-mem

bioinformatics genomics sequence-alignment

Updated Aug 29, 2022
C++

tanghaibao / goatools

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Python library to handle Gene Ontology (GO) terms

genomics gene-ontology bioinfomatics gene-set-enrichment sidak fdr goslim-terms fisher-tests fdr-benjamini holm-sidak

Updated Apr 3, 2022
Python

deeptools / deepTools

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Tools to process and analyze deep sequencing data.

python bioinformatics rna-seq genomics ngs chip-seq

Updated Sep 15, 2022
Python

tanghaibao / jcvi

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Python library to facilitate genome assembly, annotation, and comparative genomics

bioinformatics genomics assembly blast comparative-genomics variant-calling synteny sequence-alignments genome-sequencing genetic-maps allmaps

Updated Oct 5, 2022
Python

MareesAT / GWA_tutorial

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A comprehensive tutorial about GWAS and PRS

unix bioinformatics gwas r genomics genetics plink prs population-structure qc population-stratification

Updated Jan 3, 2020

vcflib / vcflib

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C++ library and cmdline tools for parsing and manipulating VCF files

genomics variant-calling genotyping haplotypecaller vcf-manipulation

Updated Aug 10, 2022
C++

biojava / biojava

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📖

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☕ BioJava is an open-source project dedicated to providing a Java library for processing biological data.

java bioinformatics genomics pdb parser-library protein-data-bank protein-structure protein-sequences sequence-alignment protein-modification structure-alignment structural-bioinformatics

Updated Oct 3, 2022
Java

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