WtP: Phage identification via nextflow and docker or singularity
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Updated
Feb 20, 2024 - Nextflow
WtP: Phage identification via nextflow and docker or singularity
From QC to summary statistics
Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery
A simple fastp-MultiQC nextflow pipeline
A suite of bioinformatics data processing and analysis pipelines, software, and training resources for common DNA and RNA sequence analysis methods.
Automated virus amplicon sequencing analysis program integrated with Nextflow pipeline manager.
This is a demo about how to develop and deploy a pipeline using nextflow, scif, a container (Singularity and Docker) and its posterior deployment.
Filter a VCF to discard false positive variants
A nextflow pipeline for performing bacterial RNA-Seq data analysis.
Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.
Workflow for prOteome and tRanScriptome functiOnal aNnotation. CAUTION : project has moved to Gitlab.
This repo contains code that is relevant for the analysis (Mapping, BAM qc, Variant Calling, Filtering etc...) of IGSR data
A Nextflow pipeline demonstrating how to train graph neural networks for gene regulatory network reconstruction using DREAM5 data.
RNA-Seq pipeline
EuroBioc2020 SPEAQeasy workshop https://eurobioc2020.bioconductor.org by Nick Eagles and Josh Stolz. For more information about SPEAQeasy check http:https://research.libd.org/SPEAQeasy/. For an example on how to use this RNA-seq processing pipeline and analyze the output files check http:https://research.libd.org/SPEAQeasy-example/.
A repository with usage examples of various pipeline and workflow orchestration tools
modules for processing and analyzing single cell data using Nextflow
cronology is an automated workflow for Cronobacter whole genome sequence assembly, subtyping and isolate clustering based on NCBI Pathogen Detection Project for Cronobacter.
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