Pinned Repositories
TF-Prioritizer
Bioinformatics pipeline to identify differentially active transcription factors between conditions using expression and epigenetic data
scRAFIKI
A nextflow pipeline for processing sc-RNASeq data, performing QC and integration and preparing the results for further investigation using cellxgene.
circrna
circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
scdownstream
A single cell transcriptomics pipeline for QC, integration and making the data presentable
tfactivity
Bioinformatics pipeline that makes use of expression and open chromatin data to identify differentially active transcription factors across conditions.
algobio
This project aims on making the algorithms covered in the corresponding lecture at LMU Munich easier to understand by providing step-by-step logging and result visualization.
bioconda-recipes
Conda recipes for the bioconda channel.
bsc-thesis
CIRIquant
circular RNA quantification tools
dotfiles
nictru's Repositories
nictru/algobio
This project aims on making the algorithms covered in the corresponding lecture at LMU Munich easier to understand by providing step-by-step logging and result visualization.
nictru/bioconda-recipes
Conda recipes for the bioconda channel.
nictru/bsc-thesis
nictru/CIRIquant
circular RNA quantification tools
nictru/dotfiles
nictru/ehmm
enhancer hidden Markov model for enhancer predictions based on chromatin marks.
nictru/ktplotspy
Python library for plotting Cellphonedb results. Ported from ktplots R package.
nictru/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
nictru/nictru
nictru/nf-core-website
Nextflow public web site
nictru/pipeJar
A java pipeline framework
nictru/psirc
Full-length linear and circular transcript isoform reconstruction and quantification
nictru/pyliftover
Pure-python implementation of UCSC liftOver genome coordinate conversion
nictru/rapids_singlecell
Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data processing and analysis.
nictru/scribornaseq
nictru/scrnaseq
A single-cell RNAseq pipeline for 10X genomics data
nictru/scvi-tools
Deep probabilistic analysis of single-cell and spatial omics data
nictru/STARE
TF analysis from epigenetic and Hi-C data
nictru/SystemsBioMedicine
nictru/test-datasets
Test data to be used for automated testing with the nf-core pipelines
nictru/toolbox
nictru/tools
Python package with helper tools for the nf-core community.