Pinned Repositories
nbahti's Repositories
nbahti/ACAM
This is the R package ACAM for cell annotation.
nbahti/ACAMdata
nbahti/awesome-deep-learning-single-cell-papers
nbahti/copykat
nbahti/covid-sequence-analysis-workflow
nbahti/COVID19-protein-sequence-analysis
nbahti/ePat
nbahti/FastRNA
FastRNA: Single-cell analysis of atlas-scale data on a laptop
nbahti/GBmap
Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolution) and how to produce the figures.
nbahti/ggsignif
Easily add significance brackets to your ggplots
nbahti/Libra
nbahti/MAGIC
MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological datasets.
nbahti/multinichenetr
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
nbahti/muon
muon is a multimodal omics Python framework
nbahti/muscat
Multi-sample multi-group scRNA-seq analysis tools
nbahti/omnideconv
Unified access to several second-generation deconvolution methods
nbahti/popsicleR
popsicleR, a flexible R package aimed at providing most of the necessary quality controls and preliminary information for complete and detailed analysis of single cell RNA-seq data.
nbahti/presto
Fast Wilcoxon and auROC
nbahti/r2u
CRAN as Ubuntu Binaries
nbahti/sc-type
nbahti/scCATCH
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
nbahti/scCATCH_performance_comparison
The source code and results of performance comparison on the detail of the process among scCATCH, CellAssign, Garnett, SingleR, scMap and CHETAH, and CellMatch database
nbahti/scMiko
R package developed for single-cell RNA-seq analysis. It was designed using the Seurat framework, and offers existing and novel single-cell analytic work flows.
nbahti/scPipeline
Single-cell analytic toolbox that offers modular workflows for multi-level cellular annotation and user-friendly analysis reports
nbahti/seurat-wrappers
Community-provided extensions to Seurat
nbahti/singleCellHaystack
Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
nbahti/STAR
RNA-seq aligner
nbahti/testpipeline
A small example pipeline used to test new nf-core infrastructure and common code.
nbahti/tools
Python package with helper tools for the nf-core community.
nbahti/WebPlotDigitizer
HTML5 based online tool to extract numerical data from plot images.