Pinned Repositories
bash-for-phylo
BiomarkerSim
dbc_Amplicons
scripts for assembling microfluidic PCR NGS data
GeoMX_DE
Files related to the differential expression analyses of GeoMX DSP data generated for the HuBMAP pancreas atlas project
HIRNInsulitis
Data and scripts related to analysis of nCounter protein expression data generated for GeoMX DSP ROIs
Kates2024NatureComm
Files related to Nature Communications manuscript NCOMMS-23-04938A
pygenomics
library for next generation genomics in python 3 by tiagoantao
SECIM_Reporting
Pipeline to analyze and report metabolomics data in neg and pos ionization mode
TanziaMLH1MSH2
Files related to the analysis of the contrasting role of MLH1 and MSH2 in KO and WT human cell lines
UF_HuBMAPscRNA
Files related to preprocessing and analysis of scRNA data generated for the HuBMAP pancreas project at UF
HeatherKates's Repositories
HeatherKates/pygenomics
library for next generation genomics in python 3 by tiagoantao
HeatherKates/bash-for-phylo
HeatherKates/BiomarkerSim
HeatherKates/dbc_Amplicons
scripts for assembling microfluidic PCR NGS data
HeatherKates/GenomicDataforPhylo
HeatherKates/GeoMX_Analysis
Pipeline to analyze HuBMAP GeoMX Data
HeatherKates/GeoMX_DE
Files related to the differential expression analyses of GeoMX DSP data generated for the HuBMAP pancreas atlas project
HeatherKates/hipergator_sbatch
Sbatch scripts for job submission on hipergator
HeatherKates/HIRNInsulitis
Data and scripts related to analysis of nCounter protein expression data generated for GeoMX DSP ROIs
HeatherKates/Kates2024NatureComm
Files related to Nature Communications manuscript NCOMMS-23-04938A
HeatherKates/Locus_selection_for_AccessArray
Data and scripts to select loci and design primers for microfluidic PCR + Illumina Seq
HeatherKates/Locus_selection_for_RAPiD
Files and scripts to mine and select loci for Cucurbita RNA probe design
HeatherKates/MPE_2016_figures
HeatherKates/SECIM_Reporting
Pipeline to analyze and report metabolomics data in neg and pos ionization mode
HeatherKates/TanziaMLH1MSH2
Files related to the analysis of the contrasting role of MLH1 and MSH2 in KO and WT human cell lines
HeatherKates/Text_processing_scripts
quick scripts to change multi-word and formatting in multi-files
HeatherKates/UF_HuBMAPscRNA
Files related to preprocessing and analysis of scRNA data generated for the HuBMAP pancreas project at UF
HeatherKates/EfronMetabolismGenes
Files related to assessing overlap between RM1 Metabolism gene list and Efron Mouse DE results
HeatherKates/HaleAVDRMStats
Data, code, and results related to Hale et al. "Effect of Cannabis on HIV Drug Resistance Mutations" in prep. 2024
HeatherKates/heatherkates.github.io
HeatherKates/HuBMAP_PercentCoverage_Analysis
Files related to the analysis of HuBMAP pancreas scan ganglia size
HeatherKates/LipidMatch
R script using rule based feature identification for lipids
HeatherKates/metid_SECIM
Construct database and identify metabolites.
HeatherKates/NanostringNGS
Code to run Nanostring NGS pipeline on hipergator
HeatherKates/Nitfix-Recon
HeatherKates/Paralog_Assembly
Bash scripts to test paralog assembly approaches
HeatherKates/Presentations
HeatherKates/SCN-gene-pipeline
HeatherKates/TanziaPractice
Files for Tanzia to practice the ATACseq workflow on hipergator
HeatherKates/UFGeoMX
Files related to processing and analyzing GeoMX DSP data generated at UF Molecular Pathology Core