Discover maxplanck-ie/data_repository Open Source project

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maxplanck-ie

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Makefiles and all associated scripts needed to completely remake /data/repository on all linux desktops

snakepipes

Customizable workflows based on snakemake and python for the analysis of NGS data

Python

378

parkour

Moved to: https://github.com/maxplanck-ie/parkour2

JavaScript

HiCAssembler

Software to assemble contigs/scaffolds into chromosomes using Hi-C data

Python

parkour2

Parkour2: Laboratory Information Management System 👩🏻‍🔬 🧬 👨🏽‍💻

Python

rna-seq-qc

Rna-seq pipeline, From FASTQ to differential expression analysis...

Python

10X_snakepipe

A snakemake pipeline for 10X genomics cellranger

Python

TheWhoTheWhatTheHuh

"The who the what the huh?" is our pipeline for converting bcl files to fastq and performing QC.

Python

cookiecutter-bioinformatics-project

A cookiecutter template for bioinformatics projects, inspired by cookiecutter-data-science and Snakemake Workflows.

Python

Rintro

material for R-Course

Rseurat

Single Cell RNA-seq Course

snakequest

A shiny app that collects user input required for running snakepipes.

ultraheatmap

extra pumped heatmaps

Python

sc-VirusScan

A Snakemake pipeline for identifying viruses from single-cell data.

Python

ATACofthesnake

Differential accessibility calculation for bulk-ATAC seq.

Python

Misc

Miscellaneous file that should probably be version controlled, but don't really need their own repositories.

Python

docker-blast

wwwblast in a docker container

Dockerfile

TRAP

tools and utilities for annotating DNA sequences

Perl

Rdeseq2

Material for the advanced R course

Genes2Functions

This is a shiny app built around clusterProfiler to perform functional enrichment analysis from RNA-Seq DE analysis

HTML

dissectBCL

demultiplexing pipeline

Python

maxplanck-ie/data_repository

maxplanck-ie

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