ReferenceEnhancer – recovery of missing single-cell RNA-sequencing data with optimized transcriptomic references
In 2018, researchers in the Caltech laboratory of Yuki Oka, professor of biology and Heritage Medical…
Browsing: Other Tools
TimeTalk – decipher cell-cell communication from single-cell RNA-seq datasets
Early embryonic development is a dynamic process that relies on proper cell-cell communication to form…
Scan – scanning sample-specific miRNA regulation
RNA-sequencing technology provides an effective tool for understanding miRNA regulation in complex human diseases, including…
METAFlux – infer metabolic fluxes from bulk or single-cell transcriptomic data
Cells often alter metabolic strategies under nutrient-deprived conditions to support their survival and growth. Characterizing…
CellBender – unsupervised removal of systematic background noise from droplet-based single-cell experiments
Droplet-based single-cell assays, including single-cell RNA sequencing (scRNA-seq), single-nucleus RNA sequencing (snRNA-seq) and cellular indexing…
Dana-Farber AI-model predicts primary source of cancer using gene sequencing data
Researchers at Dana-Farber Cancer Institute have created an AI-based tool that uses tumor gene sequencing…
RGStraP – direct inference and control of genetic population structure from RNA sequencing data
RNAseq data can be used to infer genetic variants, yet its use for estimating genetic…
ORFanage – investigating open reading frames in known and novel transcripts
Researchers at the Johns Hopkins University have developed ORFanage, a system designed to assign open…
LRT – Integrative analysis of scRNA-seq and scTCR-seq data to investigate clonal differentiation heterogeneity
Single-cell RNA sequencing (scRNA-seq) data has been widely used for cell trajectory inference, with the…
A computational pipeline to identify RNA editing sites of cell types from scRNA-seq data
RNA editing is a post-transcriptional modification with a cell-specific manner and important biological implications. Although…