wgs

There are 105 repositories under wgs topic.

  • brentp/mosdepth

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

    Language:Nim70222211101

  • flowhub-team/WholeGenomeSequencing-WGS

    Whole Genome Sequencing analysis, WGS analysis

    24243052
  • platon

    oschwengers/platon

    Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

    Language:Python11164215

  • nf-core/raredisease

    Call and score variants from WGS/WES of rare disease patients.

    Language:Nextflow9015721634
  • referenceseeker

    oschwengers/referenceseeker

    Rapid determination of appropriate reference genomes.

    Language:Python896255

  • GooglingTheCancerGenome/sv-callers

    Snakemake-based workflow for detecting structural variants in genomic data

    Language:Python7747535
  • sns

    igordot/sns

    Analysis pipelines for genomic sequencing data

    Language:Shell6481426

  • Illumina/Cyrius

    A tool to genotype CYP2D6 with WGS data

    Language:Python4912365

  • zhengxwen/SeqArray

    Data management of large-scale whole-genome sequence variant calls (Development version only)

    Language:C++4468312

  • Kingsford-Group/kourami

    Kourami: Graph-guided assembly for HLA alleles

    Language:Java35163612

  • songtaogui/pan-Zea_construct

    Workflow to construct linear representation of pan genome from deep WGS data and public assemblies

    Language:Shell27315

  • zhouzilu/iCNV

    Integrated copy number variation detection toolset

    Language:R25523
  • rMAP

    GunzIvan28/rMAP

    Bacterial analysis toolbox for full ESKAPE pathogen characterization and profiling the resistome, mobilome, virulome & phylogenomics using WGS

    Language:Shell2051217

  • Daylily-Informatics/daylily

    A NGS analysis framework for WGS data, which automates the entire process of spinning up AWS EC2 spot instances and processing FASTQ to snvVCF in <60m, for dollars a sample and achieving Fscores of 0.998.

    Language:WDL19741

  • oschwengers/tadrep

    Targeted Detection and Reconstruction of Plasmids

    Language:Python19391

  • USDA-VS/vSNP

    vSNP -- validate SNPs

    Language:Python1971112

  • FNL-MoCha/nextgenseq_pipeline

    Exome/Capture/RNASeq Pipeline Implementation using snakemake

    Language:Python18407

  • KCCG/seave

    Seave is a web platform that enables genetic variants to be easily filtered and annotated with in silico pathogenicity prediction scores and annotations from popular disease databases. Seave stores genomic variation of all types and sizes, and allows filtering for specific inheritance patterns, quality values, allele frequencies and gene lists. Seave is open source and deployable locally, or on a cloud computing provider, and works readily with gene panel, exome and whole genome data, scaling from single labs to multi-institution scale.

    Language:HTML151413

  • cvn001/transflow

    A snakemake workflow for WGS-based tuberculosis transmission analysis

    Language:HTML143106

  • xvill/xutil

    经纬度转换，sqlldr入库，Geometry工具

    Language:Go14218

  • apredeus/10k_genomes

    Various scripts for efficient processing of 10k Salmonella genomes

    Language:Shell13003

  • CoreArray/PySeqArray

    PySeqArray: data manipulation of whole-genome sequencing variants with SeqArray files in Python (pre-release version)

    Language:C++13210

  • idolawoye/BAGEP

    A pipeline for Bacterial Whole genome sequence data analysis

    Language:Python13192

  • jackhump/WGS-QC-Pipeline

    A Snakemake pipeline for Quality Control of Whole Genome Sequencing data

    Language:Python13172

  • enormandeau/wgs_sample_preparation

    Trim, Align to genome, Deduplicate, Realign WGS sequencing samples

    Language:Shell12307

  • jfnavarro/hla_pipeline

    DNA and RNA variant calling pipelines with HLA typing and Neoantigen predictions

    Language:Python104143

  • yhoogstrate/bam-lorenz-coverage

    Generate Lorenz plots and Coverage plots directly from BAM files

    Language:Python9240

  • annarchive/wgs2sgf

    qq围棋wgs棋谱转sgf格式

    Language:C++8416

  • fuxialexander/marvel

    Multigranular Analysis of Regulatory Variants on the Epigenomic Landscape

    Language:Python8230

  • senzhaocode/FuSViz

    A web-browser app to visualise, interpret and prioritise genomic/transcriptomic structural variations (SVs) of multiple samples.

    Language:JavaScript8204

  • zhanghao-njmu/NGSmodule

    A flexible, automation and pragmatic workflow tool to process the NGS data.

    Language:R8203

  • galantelab/sideRETRO

    A pipeline for detecting Somatic Insertion of DE novo RETROcopies

    Language:C7455

  • USDA-VS/vSNP3

    vSNP -- validate SNPs

    Language:Python7281

  • GooglingTheCancerGenome/sv-gen

    Snakemake-based workflow for generating artificial genomes with structural variants

    Language:Python64361

  • jhayer/baargin

    Bacterial Assembly and Antimicrobial Resistance Genes In NextFlow

    Language:Nextflow62320
  • ElGenomaPequeno

    tycheleturner/ElGenomaPequeno

    El genoma pequeño - analysis workflow for "the little genome." This repository holds a computational workflow to analyze the mitochondrial genome.

    Language:R5201