Standardized pipelines for processing epigenomic NGS data
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Updated
May 31, 2024 - HTML
Standardized pipelines for processing epigenomic NGS data
A free and easy-to-use pipeline to analyse data from ancient NCR-mtDNA sequences obtained by amplicon-based NGS methods
Reconstruction and analysis of viral and host genomes at multi-organ level
A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region expansions (RREs) from short DNA reads
command line and desktop tool for microbial variant calling
Nextflow-powered Dragonflye Pipeline for Assembling Genomes from Nanopore and Illumina Reads
NGS pipeline for influenza virus libraries
Supporting data for "Low-coverage whole genome sequencing for a highly selective cohort of severe COVID-19 patients"
This pipeline processes high-throughput sequencing data (PE/SE) through QC,trim/filter,alignment,counting etc via sequential stages, with individual samples run in parallel via submission to a Slurm queue.
This programme takes advantage of Stacks to analyze NGS data. We have successfully processed NGS data for Brassicacae plants and Triticum aestivum L.
A nextflow pipeline for calling and annotating small germline variants from short DNA reads for WES and WGS data
esohinformatics
CCBR pipeline for preliminary QC and peak calling from ATACseq datasets
A reproducible and scalable snakemake workflow for the analysis of DNA metabarcoding experiments, with a special focus on food and feed samples.
Set of scripts to process HybSeq target enrichment HTS data (on computing grids).
Circrnas in Host And viRuses anaLysis pIpEline for Detection Annotation Quantification of circRNAs
SOLIDA is command-line solution that facilitate the reproducibility and portability of NGS pipelines. It can easily organize the deployment, the data management and the execution of a Snakemake based workflow.
Variant Calling and Annotation using PacBio Hi-Fi Reads
FASTQ-to-CodFreq pipeline for HIV-1 and SARS-CoV-2
ExpoSeq is a pipeline to process and analyze in various visualizations ngs data from phage display campaigns
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