kwells4
Assistant Research Professor for the Barbara Davis Diabetes Center at University of Colorado Anschutz @CUAnschutzBDC
RNA Bioscience Initiative and Barbara Davis Center, University of Colorado School of MedicineDenver, CO
Pinned Repositories
scAnalysisR
A package to analyze single cell data in R. This package is under active development.
snakemake_pipelines
A collection of snakemake pipelines to analyze various data types. This is under active development.
ATAC_RNA_Tonsils
The analysis pipeline to accompany the manuscript "Integrated single-cell transcriptomics and epigenomics reveals strong germinal center-associated etiology of autoimmune risk loci"
benniger_tf_regulators
Analysis to accompany "Dynamic changes in β-cell [Ca 2+ ] regulates NFAT activation, gene transcription and islet gap junction communication" published in Molecular Metabolism
bulk_RNAseq
A basic pipeline for initial processing of bulk RNA seq data
clipper
A tool to identify CLIP-seq peaks
Dog_behavior_tracker
A repository containing an R shiny app that generates a fillable form to track dog behavior. This automatically updates a sheet on google drive
mtec.10x.pipeline
R package with all necessary functions to reproduce analysis for the eLife publication Combined transient ablation and single-cell RNA-sequencing reveals the development of medullary thymic epithelial cells"
mtec_analysis
The snakemake pipelines to accompany the eLife publication titled "Combined transient ablation and single-cell RNA-sequencing reveals the development of medullary thymic epithelial cells"
bmsc-7810-pbda
BMSC 7810: Practical biological data analysis with R/RStudio
kwells4's Repositories
kwells4/ATAC_RNA_Tonsils
The analysis pipeline to accompany the manuscript "Integrated single-cell transcriptomics and epigenomics reveals strong germinal center-associated etiology of autoimmune risk loci"
kwells4/benniger_tf_regulators
Analysis to accompany "Dynamic changes in β-cell [Ca 2+ ] regulates NFAT activation, gene transcription and islet gap junction communication" published in Molecular Metabolism
kwells4/bulk_RNAseq
A basic pipeline for initial processing of bulk RNA seq data
kwells4/clipper
A tool to identify CLIP-seq peaks
kwells4/Dog_behavior_tracker
A repository containing an R shiny app that generates a fillable form to track dog behavior. This automatically updates a sheet on google drive
kwells4/monocle-release
kwells4/mtec.10x.pipeline
R package with all necessary functions to reproduce analysis for the eLife publication Combined transient ablation and single-cell RNA-sequencing reveals the development of medullary thymic epithelial cells"
kwells4/mtec_analysis
The snakemake pipelines to accompany the eLife publication titled "Combined transient ablation and single-cell RNA-sequencing reveals the development of medullary thymic epithelial cells"
kwells4/myExampleRepo
This repository is an example for submitting code to github
kwells4/eclip_idr
A snakemake pipeline to run idr on eclip replicates
kwells4/eclip_normalization
rewriting the eclip normalization to work with R1 input
kwells4/pdba_files
kwells4/SCOPfunctions
An R package of functions for single cell -omics analysis.
kwells4/single_cell_scripts
kwells4/Sussel_RNAseq_PTPN
Analysis of the PTPN experiment with Yong Kim
kwells4/velocyto.py
RNA velocity estimation in Python
kwells4/visium_ovarian_cancer
All code needed to reproduce analysis in Small cell carcinoma of the ovary hypercalcemic type (SCCOHT): A review and novel case with dual germline SMARCA4 and BRCA2 mutations
kwells4/visium_public_shiny
The shiny app for the visium data