qindan2008's repositories
arriba
Fast and accurate gene fusion detection from RNA-Seq data
AtacAnnoR
An accurate and robust cross-modality cell type annotation method for scATAC-seq data
cancereffectsizeR
cancereffectsizeR: an R package to measure the cancer effect size of somatic mutations
CC-Singlecell
A project focused on using single-cell RNA sequencing data (scRNA-seq) and pseudo time to improve colon cancer diagnosis and outcomes.
CellBender
CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
Drug_Explorer
Interactive & explainable GNN for drug repurposing
dseqr
single-cell and bulk RNA-seq analyses from counts → pathways → drug candidates.
kraken2
The second version of the Kraken taxonomic sequence classification system
MACA
MACA: Marker-based automatic cell-type annotation for single cell expression data
promor
A comprehensive R package for label-free proteomics data analysis and modeling
r-scan2
R package supporting the SCAN2 pipeline
richR
Function Enrichment analysis and Network construction
rnaseqc
Fast, efficient RNA-Seq metrics for quality control and process optimization
scAmpi_single_cell_RNA
Code related to scRNA analysis using the scAmpi workflow
SCAN2
SCAN2 is a somatic SNV and indel genotyper for single cells amplified by Primary Template-Directed Amplification (PTA)
scRNA-seq_notes
A list of scRNA-seq analysis tools
scRNA_shiny
scRNA-seq Shiny App
scRNAseq-analysis-notes
scRNAseq analysis notes from Ming Tang
ShinyCell
Shiny Interactive Web Apps for Single-Cell Data
stLearn
A novel machine learning pipeline to analyse spatial transcriptomics data