Institut Curie, Bioinformatics Core Facility

TMB

Tumor Mutational Burden

trainings

Ressources for Boinformatics Trainings

geniac

Automatic Configuration GENerator and Installer for nextflow pipeline. This is a set of utilities to implement the best practises for the development of bioinformatics analysis pipelines with nextflow

mpiBWA

nf-VIF

A Nextflow-based Virus Insertion Finder

RNA-seq

Nextflow pipeline for RNA-seq pre-analysis (quality controls, genes/isoforms expression, isoform de-novo identification)

ChIP-seq

Nextflow pipeline for ChIP-seq data quality controls and analysis

mpiSORT

ATAC-seq

Nextflow pipeline for ATAC-seq data analysis

geniac-template

This is a template to pipeline with the best practises for the development of bioinformatics analysis pipelines with nextflow and geniac (Automatic Configuration GENerator and Installer for nextflow pipeline).

myproms

Mass spectrometry-based proteomics data management and analysis software

raw-qc

Nextflow pipeline for quality controls and trimming of raw sequencing data

annotationMaker

Build indexes and annotation files for Nextflow pipelines

as-mapping

Nextflow pipeline for Allele-specific analysis

mpiMarkDup

nf-CRISPR

Nextflow pipeline for CRISPR screen processing

nf-neoant

Detection of neoantigens from WES and RNA sequencing data

vegan

Variant calling pipeline for whole Exome and whole Genome sequencing cANcer data

scChIP-inDrop

inDrop single-cell ChIPseq data analysis

scRNA-SmartSeq3

Smartseq3 single-cell RNAseq data analysis.

4geniac

Docker containers for geniac

biogitflow

Development worklow protocols for bioinformatics pipelines with git and gitlab

bioinfo-pf-curie.github.io

bioshiny-modules-library

R package containing modules for an easier Shiny Apps development

clip-seq

This pipeline was set up to process CLIP-seq data from aligned sequencing reads. It includes two parts: i/the reads processing (cleaning, mapping, peak calling) and the differential analysis.

cookieCrispR

Shiny R package for CRISPR screen analysis

geniac-demo

This is a demo pipeline with the best practises for the development of bioinformatics analysis pipelines with nextflow and geniac (Automatic Configuration GENerator and Installer for nextflow pipeline).

geniac-demo-dsl2

This is a demo pipeline with the best practises for the development of bioinformatics analysis pipelines with nextflow DSL2 and geniac (Automatic Configuration GENerator and Installer for nextflow pipeline).

MDMmetals

Data analysis from Solier et al.

PacBioRunQC