There are 1 repository under wgs topic.
Whole Genome Sequencing analysis, WGS analysis
Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.
Rapid determination of appropriate reference genomes.
Call and score variants from WGS/WES of rare disease patients.
Snakemake-based workflow for detecting structural variants in genomic data
Kourami: Graph-guided assembly for HLA alleles
Workflow to construct linear representation of pan genome from deep WGS data and public assemblies
Bacterial analysis toolbox for full ESKAPE pathogen characterization and profiling the resistome, mobilome, virulome & phylogenomics using WGS
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.
Exome/Capture/RNASeq Pipeline Implementation using snakemake
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.
Various scripts for efficient processing of 10k Salmonella genomes
PySeqArray: data manipulation of whole-genome sequencing variants with SeqArray files in Python (pre-release version)
A Snakemake pipeline for Quality Control of Whole Genome Sequencing data
Trim, Align to genome, Deduplicate, Realign WGS sequencing samples
DNA and RNA variant calling pipelines with HLA typing and Neoantigen predictions
Generate Lorenz plots and Coverage plots directly from BAM files
Multigranular Analysis of Regulatory Variants on the Epigenomic Landscape
A flexible, automation and pragmatic workflow tool to process the NGS data.
A pipeline for detecting Somatic Insertion of DE novo RETROcopies
A web-browser app to visualise, interpret and prioritise genomic/transcriptomic structural variations (SVs) of multiple samples.
Snakemake-based workflow for generating artificial genomes with structural variants
Genomic data manipulation tool