MarkusRainerSchmidt

cufflinks

Rabuffo_et_al_Micro-C_data_analysis

This repository contains the scripts used for the Micro-C data analysis performed in Rabuffo et al.

Rabuffo_et_al_Tb427v12_assembly_pipeline

Closing gaps in the T. brucei Lister 427 genome assembly using ONT reads

kdb-tree-store

kdb tree implementation using a chunk store

BioSmoother

On-the-fly processing and visualization of interactome data

masurca

CIARA

CIARA (Cluster Independent Algorithm for the identification of markers of RAre cell types) is an R package that identifies potential markers of rare cell types looking at genes whose expression is confined in small regions of the expression space

COMUNET

COMUNET: a tool to explore and visualize intercellular communication

community

cell-cell communication algorithm

NicheNet_Omnipath

Building and Training of the NicheNet Method exclusively using OmniPath resources. SARS-CoV-2 case study

vscode

Visual Studio Code

keyrate

Small utility for setting the keyrate to higher speeds than is normally allowed by the Windows keyboard control panel.

hifiasm-meta

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

hifiasm

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

sequenceTubeMap

displays multiple genomic sequences in the form of a tube map

alphafold_non_docker

AlphaFold2 non-docker setup

stats

A C++ header-only library of statistical distribution functions.

CppCoreGuidelines

The C++ Core Guidelines are a set of tried-and-true guidelines, rules, and best practices about coding in C++

bokeh

Interactive Data Visualization in the browser, from Python

ocean-data-qc

Tool for QC1 (1st level of Quality Control) on Hydrographic Cruise Data.

clangformat-cmake

A simple CMake module for clang-format support

slash-a

Programming language and C++ library for (linear) genetic programming

stxxl

STXXL: Standard Template Library for Extra Large Data Sets

node-addon-api

Module for using Node-API from C++

jbrowse-components

Source code for JBrowse 2, a modern React-based genome browser

bt

COW b-trees

panGraphViewer

Show pangenome graphs in an easy way

templight

Templight is a Clang-based tool to profile the time and memory consumption of template instantiations and to perform interactive debugging sessions to gain introspection into the template instantiation process.

pybind11

Seamless operability between C++11 and Python

pybind11_json

Using nlohmann::json with pybind11