bio-workflows-tcr-pipeline

Generates reproducible microbiome data analysis workflows, automating sequence processing, taxonomic classification, diversity analysis, and statistical comparisons across microbiome samples using ...

Aligns long-read sequencing data (like Oxford Nanopore or PacBio reads) to a reference genome using specialized alignment algorithms optimized for high-error long-read technologies.

Analyzes microbiome composition and diversity by processing taxonomic abundance data, calculating ecological diversity indices, and generating statistical comparisons across different sample groups...

Generates pathway enrichment analysis visualizations by processing gene lists, performing statistical enrichment tests, and creating informative plots that highlight significant biological pathways...

Performs Gene Ontology (GO) enrichment analysis on gene lists, identifying statistically significant biological pathways and functional annotations associated with a given set of genes.

Analyzes spatial interactions and communication patterns between different cell types in tissue samples using spatial transcriptomics data, identifying potential intercellular signaling networks an...

Guides AI agents through basic differential expression analysis using DESeq2 in R, providing code templates and best practices for processing RNA-seq count data and identifying statistically signif...

Performs statistical analysis and preprocessing of metabolomics data, including normalization, multivariate statistical tests, feature selection, and visualization of metabolic profiles across expe...

Quantifies protein abundance and expression levels from mass spectrometry data using statistical methods and normalization techniques for comparative proteomics analysis.

Generates computational workflows for identifying protein-binding sites and transcription factor footprints from ATAC-seq genomic accessibility data using advanced computational analysis techniques.