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alpine_hpc_docs

Documentation and usage of Alpine HPC in Boulder

alpine_reporting_tools

A repo to contain information, scripts, and ideas of different ways to report user, departmental, and instiutional usage on Alpine

atacseq

ATAC-seq peak-calling, QC and differential analysis pipeline

bacterial_viral_genome_and_pathway_annotation_configuration

Contains instructions and code to help generate annotation files and maps for use with alignment and read counting algorithms. Additionally, there are instuctions and code for mapping annotations to KEGG/GO mapping terms for pathway analysis

beadarrayfiles

Python library to parse file formats related to Illumina bead arrays

biobank_automated_workflow_scripts

Scripts to Automate Biobank Data Flow

bioinformatics_tools

categorical_clustering_rock

chikv_dms

Deep mutational scanning repository for Thomas (Tem) Morrison Lab

chipcertify

cnmf_fgsea_wrapper

A set of functions and a run scripts for users to run fgsea on the spectra scores output by scRNA-seq cNMF; can be modified for anything that can be preranked

consega

A simple genetic algorithm for finding consensus binding sties in DNA sequences in Drosophila

cove

Concordance Validation across Experiments

cpci_data_visualization

cpp_tutorial

coding excerises from w3schools.com

crispr-cas-data-analysis

decision_tree_classifier

demux_10xgenomics_workflows

10x 5' HTO sample multiplexing with scRNA + VDJ demultiplexing pipeline

dosageconvertor

DosageConvertor is a C++ tool to convert dosage files (in VCF format) from Minimac3/4 to other formats such as MaCH or PLINK.

gap-pipe

Genotyping Array Processing Pipeline

genofinder

Haplo- and Diplotype Star Allele matcher for Drug Dosage Guidelines

gp3

GWAS Pre-Processing Pipeline

gtctovcf

Script to convert GTC/BPM files to VCF

gthack

Code to hack through, manipulate, and extract information from GTC files

gwas_analysis_pipeline

gwas_qa_qc_pipeline

ibd_and_ancestral_scripts

scripts written for ibd and ancestral analysis

immu6110_introduction_to_bioinformatics

CU Anschutz Course IMMU6110, introduction to bioinformatics for Department of Immunology and Microbiology

impaa

Impuatation Association Analysis

intro_matplotlib_tutorial_rmacc2017

Python Matplotlib tutorial presented at RMACC 2017