Maxime Garcia

Login: MaxUlysse

Company: @SciLifeLab | Karolinska Institutet

Location: Stockholm

Bio: PhD in bioinformatics, interested in cancer, large-scale data integration, automation and visualization.

Blog: https://maxulysse.github.io

Blog: https://maxulysse.github.io

Member of

1. National Genomics Infrastructure
2. nf-core
3. Science For Life Laboratory

Repositories

awesome-nextflow

A curated list of nextflow based pipelines

BioNextflow

Nextflow functions for biological tools

CAW

Cancer Analysis Workflow: a complete open source pipeline to detect somatic variants from WGS data

CAW

Cancer Analysis Workflow: a complete open source pipeline to detect somatic variants from WGS data

CAW-containers

Containers for CAW

CAW-References

References files for CAW

cipher-workflow-platform

A data processing platform for ChIP-seq, RNA-seq, MNase-seq, DNase-seq, ATAC-seq and GRO-seq datasets. Please ignore information on cipher.readthedocs.io, it is currently out of date. Follow information in README.

CodeRefinery-Testing_CI_Coverage

Testing CI and Coverage with CodeRefinery

compile-latex

Simple beamer compiler using Nextflow, provided with container for Docker and Singularity

conferenceCoverage

Twitter Conference Coverage analysis from hastag using R-project

dotfiles

@holman does dotfiles

ensembl-vep

The Variant Effect Predictor predicts the functional effects of genomic variants

exoseq

Exome Sequencing analysis pipeline (Work in progress)

nf-logos

contains logos for nf-core

nf-logos

contains logos for nf-core

maxulysse.github.io

My own jekyll personnal website

methylseq

Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

MultiQC

Aggregate results from bioinformatics analyses across many samples into a single report.

myCV

my CV made with compile-latex

myIcons

Minimalist icons in SVG format for social websites

myJSONresume

null

myOwnThesis

My own thesis made with myThesis template

myThesis

LaTeX Thesis Template

myzsh

null

nextflow

A DSL for data-driven computational pipelines

nextflow-website

Nextflow public web site

nf-logos

contains logos for nf-core

nf-logos

contains logos for nf-core

NGI-NextflowDocs

Common documentation for National Genomics Infrastructure pipelines built with Nextflow

NGI-RNAseq

Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.

Presentations

My presentations made with compile-latex

CAW

Cancer Analysis Workflow: a complete open source pipeline to detect somatic variants from WGS data

CAW

Cancer Analysis Workflow: a complete open source pipeline to detect somatic variants from WGS data

Sarek-data

Sarek test data and references

Sarek-data

Sarek test data and references

Setting-up-computer

Own guide to set up computer

Sarek-data

Sarek test data and references

speedtracker

? Visualisation layer and data store for SpeedTracker

test_jesper

null

wgs-structvar

Whole Genome Sequenceing Structural Variation Pipelines

Commits To