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alpine_reporting_tools Public
A repo to contain information, scripts, and ideas of different ways to report user, departmental, and instiutional usage on Alpine
Shell UpdatedAug 26, 2024 -
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QTL_analysis Public
Data wrangling for QTL analysis and code for the statistical and computational analysis of QTLs
MIT License UpdatedJun 4, 2024 -
GThaCk Public
Code to hack through, manipulate, and extract information from GTC files
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cNMF_fgsea_wrapper Public
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
R MIT License UpdatedFeb 29, 2024 -
Workflows to help facilitate demultiplexing and analysis for scRNA-seq libraries generated with BD Sciences Rhapsody Multiplexing Kit
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CHIKV_DMS Public
Deep mutational scanning repository for Thomas (Tem) Morrison Lab
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Automated shell + slurm scripts to demultiplex Parse Bioscience scRNA workflows
Shell MIT License UpdatedNov 14, 2023 -
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nvida_ai_ml_series Public
tutorials from Mark III Systems and Nvidia for GPU, ML, and AI
Jupyter Notebook UpdatedJun 8, 2023 -
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 t…
MIT License UpdatedApr 26, 2023 -
atacseq Public
Forked from nf-core/atacseqATAC-seq peak-calling, QC and differential analysis pipeline
Nextflow MIT License UpdatedFeb 6, 2023 -
Alpine_HPC_Docs Public
Documentation and usage of Alpine HPC in Boulder
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demux_10xgenomics_workflows Public
10x 5' HTO sample multiplexing with scRNA + VDJ demultiplexing pipeline
Shell UpdatedNov 17, 2022 -
neoantigENcyclopedia Public
data merging and prediction pipeline for neoantigen detection
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NK_eQTL Public
Forked from jjgilchrist/NK_eQTLR Creative Commons Zero v1.0 Universal UpdatedMay 13, 2022 -
CU Anschutz Course IMMU6110, introduction to bioinformatics for Department of Immunology and Microbiology
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metricCollector Public
Takes in several types of metrics from commonly used software suite outputs and complies them all into a simple dataframe
Python MIT License UpdatedSep 29, 2021 -
QuaCK Public
Quality Control Summary Pipeline for Array-based Genome Studio Projects (idats, raw genotype quality)
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SAIGE-BRUSH Public
Implementation of SAIGE GWAS software with modifications, scalability, and user-friendly implementation
Go MIT License UpdatedJun 4, 2021 -
R_tutorials Public
A repository containing various R and Rstudio tutorials
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WESvarCall Public
A pipeline for whole exome sequencing variant calling pipeline
Jupyter Notebook MIT License UpdatedFeb 17, 2021 -
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ConSeGA Public
A simple genetic algorithm for finding consensus binding sties in DNA sequences in Drosophila
Python GNU General Public License v3.0 UpdatedMay 1, 2020 -
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BeadArrayFiles Public
Forked from Illumina/BeadArrayFilesPython library to parse file formats related to Illumina bead arrays
Python UpdatedDec 17, 2019 -
GP3 Public
GWAS Pre-Processing Pipeline