Whole Genome Sequencing analysis, WGS analysis

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

Analysis pipelines for genomic sequencing data

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

Integrated copy number variation detection toolset

Pipeline analysis for whole exome sequencing of pancreatic cancer PDX models

Exome/Capture/RNASeq Pipeline Implementation using snakemake

GCAP (Gene-level Circular Amplicon Prediction) firstly implements extrachromosomal DNA detection from whole-exome-sequencing (WES) data and absolute copy number profiles. https://shixiangwang.r-universe.dev/gcap

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

A pipeline for detecting Somatic Insertion of DE novo RETROcopies

The DKFZ alignment workflow plugin originally developed at the eilslabs

The snakemake workflow for whole-exome sequencing analysis and generating vcf files

Work Environment Survey employee engagement states

Pipelines for SNVs and InDels calling (single sample and joint) in WEGS, WGS, and WES using GATK.

SCHeMa (Scheduler for scientific Containers on clusters of Heterogeneous Machines) is an open source platform to facilitate the execution and reproducibility of computational experiments on heterogeneous clusters.

This is a nextflow pipeline for variant calling of low frequency variants in panel/WES high-throughput data.

Reference pipeline for somatic SNP detection using BWA for mapping, Mutect2 for calling and Annovar for annotation