spatialDLPFC project involving Visium (n = 30), Visium SPG (n = 4) and snRNA-seq (n = 19) samples
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Updated
May 9, 2024 - HTML
spatialDLPFC project involving Visium (n = 30), Visium SPG (n = 4) and snRNA-seq (n = 19) samples
Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
Repository holding the code for the drugfindR R package
R package for pathway analysis in scRNA-seq data
A tailored identification framework to depict the landscape of transcribed conserved non-coding elements (TCNEs)
Expectation-Maximization-based clustering algorithm to identify groups defined by biological variates as clusters in single-cell transcriptomic data.
Cell-type Relationship Analysis Workflow Done Across Distances
Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
An ontology of cell types
Differential communication analysis for scRNAseq datasets based on expression products
Visium SPG AD project (n = 10) using Visium Spatial Proteogenomics (Visium-SPG) on dissections from the inferior temporal cortex (ITC) from Alzheimer's disease cases and controls.
A python package for working with inputs to and outputs from the toil-rnaseq pipeline
R Markdown script to perform bioinformatic analysis on RNA-seq raw count matrices, including DE-testing via DESeq2 and gene set enrichment analysis (GSEA).
Supplementary Materials for "Intragenomic conflict underlies extreme phenotypic plasticity in queen-worker caste determination in honey bees (Apis mellifera)"
Single-cell analysis in Python. Scales to >1M cells.
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
RNA sequencing analysis software
From geospatial to spatial -omics
Annotated data.
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