Stracquadanio Lab

All

27 repositories

quickmd-nf
Public
MIT License
•0•0•0•0•Updated Nov 28, 2024Nov 28, 2024
cookiecutter-workflow-nf
Public
A standardized directory structure to build workflows using Nextflow.
nextflow cookiecutter
Dockerfile
•0•4•0•0•Updated Aug 19, 2024Aug 19, 2024
apex-nf
Public
APEX: Automated Protein EXpression in E. coli
nextflow lab-automation nextflow-pipelines opentrons opentrons-ot2
Python
•
GNU Affero General Public License v3.0
•0•2•0•0•Updated Aug 13, 2024Aug 13, 2024
prevent-nf
Public
PREVENT: PRotein Engineering by Variational frEe eNergy approximaTion
Python
•
GNU Affero General Public License v3.0
•0•5•0•0•Updated Jul 4, 2024Jul 4, 2024
openmm-nf
Public
Workflow to measure protein mutant stability with respect to the wild type
Python
•0•0•0•0•Updated May 13, 2024May 13, 2024
mooda
Public
A DNA design and assembly method based on multi-objective optimization.
synthetic-biology evolutionary-algorithms assembly optimisation dna-sequence
Python
•
MIT License
•0•6•0•2•Updated May 3, 2024May 3, 2024
docker-latex
Public
A full Tex image
latex docker-images
Shell
•1•0•0•0•Updated Apr 25, 2024Apr 25, 2024
cubseq-nf
Public
CUBseq analyses codon usage bias from RNA-seq data, producing robust CUB estimates that account for variants transcriptome-wide and in highly expressed genes.
nextflow rnaseq transcriptomics codon-optimization codon-usage codon-bias
R
•
MIT License
•1•2•0•0•Updated Mar 29, 2024Mar 29, 2024
scilenzio-yeast-nf
Public
Analysis of transcriptional repression in synthetic yeast chromosome using RNA-seq data (post-sc2.0).
Nextflow
•0•0•0•0•Updated Feb 14, 2024Feb 14, 2024
quick-fold-nf
Public
A Nextflow workflow for protein structure prediction.
Python
•0•0•0•0•Updated Oct 23, 2023Oct 23, 2023
gh-action-setup-nextflow
Public
Setup Nextflow for GitHub Actions.
nextflow github-actions
0•0•0•0•Updated Sep 28, 2023Sep 28, 2023
docs
Public
Lab documentation
science documentation research mkdocs
0•0•0•0•Updated Aug 2, 2022Aug 2, 2022
spi-nf
Public
The SCRaMbLE Polymer Interaction model (SPI) workflow
nextflow synthetic-genomics synthetic-yeast
Python
•0•0•0•0•Updated Jul 21, 2022Jul 21, 2022
pygna
Public
A Python package for gene network analysis
bioinformatics networkx biostatistics enrichment-analysis network-biology pygna
Python
•
MIT License
•6•32•0•1•Updated Jun 22, 2022Jun 22, 2022
quick-rnaseq-nf
Public
A basic and quick workflow for differential expression analysis
nextflow rnaseq
Nextflow
•
MIT License
•1•1•0•0•Updated Jun 17, 2022Jun 17, 2022
cookiecutter-workspace-nf
Public
A directory structure to build a workspace for experiments.
nextflow cookiecutter
0•0•0•0•Updated Mar 23, 2022Mar 23, 2022
cookiecutter-docker-image
Public
A standardized repository structure to build Docker containers.
cookiecutter docker-images docker-containers
Dockerfile
•1•2•0•0•Updated Feb 3, 2022Feb 3, 2022
baghera
Public
Bayesian Gene Heritability Analysis from GWAS summary statistics
bioinformatics biostatistics bayesian-inference pymc3 gwas
Python
•
MIT License
•0•9•0•0•Updated Jan 28, 2022Jan 28, 2022
gh-action-latexmk
Public
A latexmk action to compile latex files on GitHub.
latexmk github-actions latex
Shell
•0•0•0•0•Updated Jan 14, 2022Jan 14, 2022
cookiecutter-github-action
Public
A cookiecutter to bootstrap Github actions
cookiecutter cookiecutter-template github-actions
Dockerfile
•0•1•0•0•Updated Jan 12, 2022Jan 12, 2022
gh-action-release-label
Public
An action to generate standard release labels.
actions github-actions
Dockerfile
•0•0•0•0•Updated Oct 8, 2020Oct 8, 2020
workflow-pygna
Public
A simple Snakemake workflow to perform network analyses using the Python Geneset Network Analysis (PyGNA) package.
snakemake snakemake-workflows pipeline
HTML
•
MIT License
•1•1•0•0•Updated Jun 29, 2020Jun 29, 2020
gh-action-lint-project
Public archive
Performs checks on directory structure and naming standard of a project.
Python
•0•1•0•0•Updated Apr 28, 2020Apr 28, 2020
gh-action-snakemake
Public archive
Running snakemake in GitHub actions.
Dockerfile
•0•0•0•0•Updated Apr 28, 2020Apr 28, 2020
gh-action-timestamp
Public
An action to obtain a timestamp
Dockerfile
•0•0•0•0•Updated Jan 30, 2020Jan 30, 2020
stracolors
Public
The official colours of the StracquadanioLab
python color-palettes matplotlib
Python
•
MIT License
•1•1•2•0•Updated Aug 30, 2019Aug 30, 2019
githubcutter
Public archive
A tool to setup GitHub repositories using simple YAML templates.
github git automation
Python
•
MIT License
•0•1•0•0•Updated May 8, 2019May 8, 2019