CostaLab/sc2marker

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CostaLab/sc2marker

CostaLab

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Surface Marker Detection Using Single Cell Data

reg-gen

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

CrossTalkeR

R package to do the Ligand Receptor Analysis Visualization

Jupyter Notebook

scMEGA

scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference

scopen

scOpen: single-cell open chromatin analysis via NMF modelling

scrna_seurat_pipeline

comprehensive analysis of single-cell transcriptomics data

MOJITOO

MOJITOO: a fast and universal method for integration of multimodal single cell data

PILOT

Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT)

scopen-reproducibility

A repository to include all scripts and codes for reproducibility of scOpen manuscript

CimpleG

CimpleG, an R package to find (small) CpG signatures.

phlower

Use hodge decomposition for trajectory analysis

RNA_Expression_Analysis_in_Python

Jupyter Notebook

practical_SS2015

Bioinformatics Lab RWTH Aachen SS '15

SOSE_2021

A repository of materials for the SOSE2021 course of CostaLab

condcomp

An R package for analysis of data conditions in scRNA-seq.

pyCrossTalkeR

Jupyter Notebook

dream-challenge

The code and data for the ENCODE-DREAM in vivo Transcription Factor Binding Site Prediction Challenge

phlower-reproducibility

Source code for the reproducibility of the PHLOWER manuscript