mahesh-panchal/Training-Tech-shorts
Short lessons, training various technologies useful to our work.
Bioinformatician for @NBISweden . I specialize in genome assembly and Nextflow workflows.
Repositories
mahesh-panchal/Nextflow-selection-workflow
mahesh-panchal/assembly-project-template
This is a template for all assembly projects. Please read the instructions below on how to use it.
mahesh-panchal/BACTpipe
BACTpipe: An assembly and annotation pipeline for bacterial genomics
mahesh-panchal/workshop-reproducible-research
NBIS/ELIXIR course: Tools for Reproducible Research
mahesh-panchal/nf-core-methylseq
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
mahesh-panchal/nf-core-ameta
An nf-core compliant version of aMeta; An ancient metagenomic profiling Snakemake workflow
mahesh-panchal/Nextflow-metadata-practices
A demonstration of how to work with metadata in Nextflow
mahesh-panchal/nextflow
A DSL for data-driven computational pipelines
mahesh-panchal/NBIS-workshop-genome_assembly
mahesh-panchal/nextflow-quarto-multiqc-demo
Using Quarto within Nextflow to make a MultiQC report
mahesh-panchal/quarto-docker-singularity-problem
mahesh-panchal/dovetail-genomics-Omni-C
Omni-C data processing documentation and scripts
mahesh-panchal/Nextflow-code-clinic
A website to help workshop participants improve and develop their Nextflow workflows
mahesh-panchal/gff3-validator
A GFF3 validator
mahesh-panchal/carpentries-workflows-nextflow
Workflow management with Nextflow and nf-core
mahesh-panchal/academic-project-template
A template for reproducible academic projects
mahesh-panchal/nextflow-website
Nextflow public web site
mahesh-panchal/multi-package-containers
Testing building mulled containers for multi-requirement tools.
mahesh-panchal/nf-core_metamap-management-poc
Proof-of-concept for managing meta data in nf-core workflows
mahesh-panchal/nf-metamap-operators
A plugin to supply additional operators to nf-core workflows for manipulating the meta map
mahesh-panchal/test_nfcore_workflow_chain
This is now outdated as the template has changed dramatically.
mahesh-panchal/nf-core_modules_demo
A demonstration of how to use nf-core modules in your workflow
mahesh-panchal/Nextflow_Conditional_BuildDB
A Nextflow DSL2 workflow testing conditional database building
mahesh-panchal/aMeta
Ancient microbiome snakemake workflow
mahesh-panchal/pipelines-nextflow
A set of workflows written in Nextflow for Genome Annotation.
mahesh-panchal/quarto-confluence-project
A demonstration quarto project to push to confluence
mahesh-panchal/ANeCA
ANeCA: Automated Nested Clade Analysis
mahesh-panchal/Quarto-Rust-attempt
Exploring if I can use Rust in Quarto
mahesh-panchal/reproducible-research
A demonstration of how to work reproducibly using version control, containers, and a workflow manager.