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followers: 12.0 following: 94.0 repos: 52.0 gists: 0.0

Name: Julien A Nguinkal

Type: User

Company: Bernard-Nocht Institute for Tropical Medicine - Hamburg

Bio: Bioinformatics/Computational Scientist at Bernard-Nocht Institute for Tropical Medicine.

Location: Hamburg

Blog: https://www.bnitm.de/

Hi there 👋

Welcome, I am Julien!

I'm a trained bioinformatician and currently a computational Scientist at the Bernard-Nocht Institute (BNI) for Tropical Medicine
I integrate well-established NGS technologies for microbial & animal genome assembly and annotation;
I use HPC for large scale data processing;
I am R enthiast, which I primary leverage for data cleaning, wrangling and visualization in the tidyverse ecosystem;
I use BASH and python for scripting pipeline and reformatting data;
Both Conda and Nextflow are good friends of mine;
I BASH and python for scripting writing workflows and reformatting data;
I advocate for reproducible research and open science by making my worklows and pipelien as reprocdicele as posible and my data FAIR.

Julien A Nguinkal's Projects

30daysgenerativeai

Ce repo est créé pour partager toutes les ressouces des vidéos du challenge 30DaysGenerativeAI sur la chaîne Youtube LeCoinStat

agat

Another Gtf/Gff Analysis Toolkit

amr-ngs-pipeline

A Nextflow pipeline for NGS antimicrobial resistance profiling. From raw NGS FASTQ to rendered AMR profiles

amrplusplus_bioinformatic_workshop

ariba

Antimicrobial Resistance Identification By Assembly

augustus

AUGUSTUS v3.2.1 for installation on Mac OS X

bactopia

A flexible pipeline for complete analysis of bacterial genomes

bakta

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

bbalog87

Config files for my GitHub profile.

bbalog87.github.io

bio-playground

miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.

bioconda-recipes

Conda recipes for the bioconda channel.

bioinformatics_resources

build_nextstrain

Nextstrain Analysis Automation Script. This wrapper Python script is developed to automate the analysis steps of RNA virus sequences as much as possible using Nextstrain.

catfish-genome

Pipelines, code and ressources for creating a fully haplotype-resolved T2T assembly of the African catfish (Clarias gariepinus) combining PacBio HiFi, ONT long reads and Hi-C data.

cenote-taker2

Cenote-Taker2: Discover and Annotate Divergent Viral Contigs

cheatsheets

Posit Cheat Sheets - Can also be found at https://posit.co/resources/cheatsheets/.

eac_pathogen_genomics

Data and resources accompanying the manuscript on Pathogen Next-Generation Sequencing in the East African Community. Includes NPHL survey responses and metadata on bacterial pathogens

eac_project_bioinformatics

fetch_ncbiassemblies

Accessing NCBI’s Entrez databases using EDirect utility

genomegtftools

convert various features into a GFF-like file for use in genome browsers

getting-started-with-genomics-tools-and-resources

Unix, R and python tools for genomics and data science

gget

gget enables efficient querying of genomic databases, such as Ensembl, UniProt, NCBI, directly into a Python or terminal programming environment. It was designed to support genomic data analysis.

github-readme-stats

:zap: Dynamically generated stats for your github readmes

grenepipe

A flexible, scalable, and reproducible pipeline to automate variant calling from sequence reads.

liftoff

An accurate GFF3/GTF lift over pipeline

metagenomics

A Nextflow workflow for QC, evaluation, and profiling of metagenomic samples using short- and long-read technologies

bbalog87 Goto Github PK

Hi there 👋

Welcome, I am Julien!

Julien A Nguinkal's Projects

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