bioinformatics 20 scrna-seq 18 single-cell-rna-seq 12 seurat 10 r 9 rna-seq 9 single-cell-genomics 9 deep-learning 8 10x 8 gene-expression 7 anndata 6 visualization 6 single-cell-analysis 5 scanpy 5 transcriptomics 5 llm 4 scrna-pipeline 4 scrna-seq-analysis 4 clonal-analysis 4 quantification 4 data-visualization 4 spatial-transcriptomics 3 ggplot2 3 dimensionality-reduction 3 clustering 3 genomics 3 nonnegative-matrix-factorization 3 shiny-app 2 seurat-objects 2 graph-neural-networks 2 shiny-apps 2 spatial-data 2 shinyapps 2 scatac-seq 2 atac 2 shiny 2 human-cell-atlas 2 hacktoberfest 2 gui 2 feature-extraction 2 dimension-reduction 2 gpt 2 foundation-model 2 transcriptome 2 selective-alignment 2 salmon 2 sailfish 2 rnaseq 2 rna-seq-quantification 2 scverse 2 citeseq 2 dropseq 2 rust 2 annsql 2 genomic-data-analysis 2 h5ad 2 sql 2 aneuploidy 2 clonal-evolution 2 copy-number-variation 2 copynumber 2 microenvironment 2 subclonal-deconvolution 2 subclone-identification 2 tumor-classification 2 tumor-evolution 2 tumor-heterogeneity 2 single-cell-atac-seq 2 single-cell-omics 2 single-cell-pipeline 2 single-cell-sequencing 2 clonal-clustering 2 gibbs-sampling 2 somatic-mutations 2 analyses 2 demo-scripts 2 dimensionality 2 matlab 2 matlab-toolbox 2 phate 2 rna-seq-analysis 2 trajectory 2 tsne 2 workflow 2 scrna 2 qwen 2 openrouter 2 openai 2 large-language-models 2 grok 2 gptcelltype 2 gemini 2 deepseek-r1 2 deepseek-chat 2 deepseek 2 consensus-algorithm 2 claude 2 cell-type-annotation 2 scalex 2 online-integration 2