csgroen
Post-doctoral fellow at Corderliers Research Center // PhD from PSL Research University and Institute Curie
Cordeliers Research CenterParis, FR
Pinned Repositories
consensusMIBC
Transcriptomic classifier for Muscle-Invasive Bladder Cancer
abbreviations
classifyT1BC
Classification of T1 Bladder Cancer
deconverse
Bulk RNA-seq deconvolution and benchmarking using single-cell reference profiles
freshinstall
UFPR Bioinformatics Lab fresh install bash script
ggheatmapper
Tile-able heatmaps using ggheatmap and patchwork
RTN
This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/RTN.html Contributions: http://dx.doi.org/10.1038/ncomms3464. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=RTN.
RTN_example_TCGA_LIHC
Example of data preprocessing for RTNsurvival, using the TCGA-LIHC cohort
RTNsurvival
RTNsurvival: An R/Bioconductor package for survival analysis using transcriptional networks and regulons
scycle
Cell cycle pseudotime in single-cell RNA-seq
csgroen's Repositories
csgroen/scycle
Cell cycle pseudotime in single-cell RNA-seq
csgroen/RTN_example_TCGA_LIHC
Example of data preprocessing for RTNsurvival, using the TCGA-LIHC cohort
csgroen/ggheatmapper
Tile-able heatmaps using ggheatmap and patchwork
csgroen/freshinstall
UFPR Bioinformatics Lab fresh install bash script
csgroen/classifyT1BC
Classification of T1 Bladder Cancer
csgroen/deconverse
Bulk RNA-seq deconvolution and benchmarking using single-cell reference profiles
csgroen/RTNsurvival
RTNsurvival: An R/Bioconductor package for survival analysis using transcriptional networks and regulons
csgroen/abbreviations
csgroen/blog_example
Minimal reproducible analysis example
csgroen/cit_blca_proteomics
Reproducible code for all analyses in bladder cancer proteomics manuscript
csgroen/consensusMIBCweb
Temporary: A webapp version of the consensusMIBC R package
csgroen/csgroen.github.io
Blog
csgroen/deconverse_data
Data cache for deconverse
csgroen/dotfiles
some of my dotfiles
csgroen/ecotyper
csgroen/elpigraph-python
Python implementation of the ElPiGraph algorithm with cpu and gpu support
csgroen/ggplot2
An implementation of the Grammar of Graphics in R
csgroen/hyde
A brazen two-column theme for Jekyll.
csgroen/infercnvpy
Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
csgroen/mibcCPIclass
csgroen/mkdocs
Project documentation with Markdown.
csgroen/NCBI_Taxonomy_Search
Search locally hosted NCBI Taxonomy using Flask
csgroen/Rbasics
csgroen/RTNduals
Regulatory loops using networks inferred by RTN.
csgroen/salmon
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
csgroen/scanpy
Single-Cell Analysis in Python. Scales to >1M cells.
csgroen/scycle_notebooks
csgroen/sphinx_rtd_theme
Sphinx theme for readthedocs.org
csgroen/Stabilized_ICA
This repository proposes a python implementation of a stabilized ICA algorithm
csgroen/styles
Official repository for Citation Style Language (CSL) citation styles.