Pipeline in place at the UGI for DNA level analysis
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Updated
Dec 11, 2018 - R
Pipeline in place at the UGI for DNA level analysis
Tumor in normal detection
A framework for generating synthetic genomics data for the evaluation of tumor-only somatic variant calling algorithms for the needs of my Doctoral Thesis.
Source code to support the paper: "Extensive mitochondrial population structure and haplotype-specific variation in metabolic phenotypes in the Drosophila Genetic Reference Panel"
Obtaining case-associated variants and correspondent genes (from control/case experiments) in BASH/R enviroment
A simple tool for SNP mutation type determination.
NanoSwe: Analysing nanopore (PromethION) data of Swedish genomes
Identification of gene-fusions, including EML4-ALK
A pipeline to study intratumor heterogeneity (ITH) with Canopy
Management flow using PBS system to analyze sequencing data from Illumina Novaseq6000
This repository contains bash shell scripts
Pipelines/Wrappers for evaluating the performance of variant callers on tumor/normal RNA-Seq data
A framework for generating synthetic genomics data for the evaluation of tumor-only somatic variant calling algorithms.
interactive variant tables for easy filtering
Detection of oncogenic and clinically actionable mutations in cancer genomes critically depends on variant calling tools
INDELfindR is an command line tool for detecting complex insertions and deletions (indels) from indexed BAM files.
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