Mar111tiN

myCNV

CopyNumberVariation detection in WES data using coverage and heteroSNP

somVarWES

full-fledged pipeline for detecting somatic variants in WES data

primertools

(optionally containerized) tools for creating primers, searching and indexing primers

WorldMap

interactive Word Map using d3

filterbam

creates a set of filterbam files for use in IGV from mutation list and original (LARGE) bam files

datadockers

collection of base docker images for datascience

mawktools

collection of mawk tools for ultra-fast bioinformatic data processing

10xCX

bam2fastq

converts bam files into paired fastq files

biodockers

containers for bioinformatic research

cellrangersnake

snakemake pipeline for preprocessing 10x-NGS-data using cellranger

clarapi

CNVvalidation

workflow for validation of CNV results and subsequent VAF adjustment in SNV data

deepseqvali

pipeline for validation of known mutations using deep sequencing

digiwest

tools for working with Digiwest data

ebscore

HDRdetect

bioinformatic tool for the detection of false-positive mutations in bam-files caused by mapping artefacts

lumipy

code collection and tools for working with Luminex data

panelseq

little tool for creating sample sheets from a sequencing excel

projectsceleton

Sceleton project folder as a template to start work from

pubMap

force-directed graph for publication interaction

pyseq

Assortment of tools to work with sequencing data and panel design

PythonDataScienceHandbook

PythonMachineLearning

notebooks accompanying the PythonMachineLearning book by Sebastian Raschka

pytools

loose collection of python functions for bioinformatics

qpcRtools

utils for visualising and normalizing ddPCR and real-timePCR raw data

Rmut

R tools for filtering and visualizing filter lists from somvarWES pipeline

RNAseq

simple RNAseq pipeline based on snakemake workflow with extensive QC

shorties

lose bundle of condensest manuals

WESbam

create realigned recalibrated (possibly UMI-filtered) bam files from WholeExomSeq data