anndataR improves interoperability between R and Python in single-cell transcriptomics
software
single-cell
interoperability
Defining and benchmarking open problems in single-cell analysis
benchmarking
scrna-seq
website
funkyheatmap: Visualising data frames with mixed data types
visualisation
software
Feature selection methods affect the performance of scRNA-seq data integration and querying
scrna-seq
feature selection
benchmarking
integration
Deciphering brain organoids heterogeneity by identifying key quality determinants
organoids
brain
rna-seq
An open-source framework for end-to-end analysis of electronic health record data
medical records
software
Optimal distance metrics for single-cell RNA-seq populations
scrna-seq
rna-seq
distances
benchmarking
Integrating single-cell RNA-seq datasets with substantial batch effects
single-cell
rna-seq
integration
batch effects
methods
Population-level integration of single-cell datasets enables multi-scale analysis across samples
single-cell
rna-seq
methods
integration
software
Delineating mouse β-cell identity during lifetime and in diabetes with a single cell atlas
single-cell
rna-seq
mouse
pancreas
atlas
An integrated cell atlas of the lung in health and disease
single-cell
rna-seq
lung
atlas
Best practices for single-cell analysis across modalities
single-cell
multiomics
best practices
review
Benchmarking atlas-level data integration in single-cell genomics
single-cell
rna-seq
integration
benchmarking
splatPop: simulating population scale single-cell RNA sequencing data
single-cell
rna-seq
simulation
population
software
methods
Over 1000 tools reveal trends in the single-cell RNA-seq analysis landscape
single-cell
rna-seq
database
Sfaira accelerates data and model reuse in single cell genomics
single-cell
rna-seq
database
website
HiTIME: An efficient model-selection approach for the detection of unknown drug metabolites in LC-MS data
mass spectrometry
software
Opportunities and challenges in long-read sequencing data analysis
data analysis
long read
database
website
Tools and techniques for single-cell RNA sequencing data
single-cell
rna-seq
methods
thesis
PhD
Single cell analysis of the developing mouse kidney provides deeper insight into marker gene expression and ligand-receptor crosstalk
organogenesis
single-cell
rna-seq
mouse
kidney
development
nephron
Kidney micro-organoids in suspension culture as a scalable source of human pluripotent stem cell-derived kidney cells
nephron
stem cell
suspension culture
single-cell
rna-seq
kidney
organoids
Nephron progenitor commitment is a stochastic process influenced by cell migration
single-cell
rna-seq
mouse
kidney
nephron
Single-cell analysis reveals congruence between kidney organoids and human fetal kidney
single-cell
rna-seq
kidney
organoids
Evaluation of variability in human kidney organoids
kidney
organoids
variability
rna-seq
single-cell
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