DupFinder: A tools to detect the duplicated genes using Illumina and Nanopore sequencing data
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Updated
Sep 13, 2023 - Nextflow
DupFinder: A tools to detect the duplicated genes using Illumina and Nanopore sequencing data
Pipeline for gene candidate discovery based on mutagenesis. Featured in gene cloning research published in Nature (DOIs: 10.1038/s41467-020-14937-2, 10.1038/s41467-021-23738-0, 10.1038/s41477-021-00971-5), Molecular Plant (DOI: 10.1016/j.molp.2021.05.010) and New Phytologist (DOI: 10.1111/nph.17075).
RAD-seq protocols for the Agilent NGS workstation option B.
software for processing tuberculosis whole genome data. interface to the BWA, VarScan, SamTools etc.
Create a normalized heatmap for targeted RNAseq count matrix using user-defined housekeeping gene normalization.
Different approaches to calculate mappability and GC-rich tracks for danio rerio genomes
Workflow to perform a Variant Calling Analysis
project for developing python package to handle ngs data
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.
Leveraging WES short reads for PAN-EXOME creation and analysis.
A fast C++ tool to filter .bam files by CIGAR string
Framework to benchmark germline copy-number variant detection tools from NGS data
Filters for Next Generation Sequencing
Repository for pan-spefic primers designed for tiled full genome sequencing or qPCR of viral pathogens. Pathogens include amongst others Hepatitis E virus, Hepatitis A virus, Poliovirus and SARS-COV-2. Primers were designed with varVAMP.
Notebooks and examples for DeepVariant on Spark project.
Determine polyA sites from 3'end sequence data
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