Pinned Repositories
AnVILWorkflow
Runnable workflow package using Terra/GCP resources
AnVILWorkshop_initial
AnVIL/Terra workshop for BioC2020
CNVWorkflow_Code
CNV analysis workflow code for the manuscript
CNVWorkflow_Meetup
2018 NYC R/Bioconductor Meetup Presentation
GenomicSuperSignature
Interpretation of RNAseq experiments through robust, efficient comparison to public databases
GenomicSuperSignaturePaper
Usecases and benchmarking examples of GenomicSuperSignature R Package
MetaHarmonizer
Automated metadata harmonization tool/workflow leveraging the gold-standard metadata created from the OmicsMLRepo project
PureCN_manuscript
HGNChelper
Identify and correct invalid gene symbols
OmicsMLRepoData
Translate Bioconductor resources into AI/ML-ready format + Manual curation/harmonization of the metadata for improved usability
shbrief's Repositories
shbrief/GenomicSuperSignature
Interpretation of RNAseq experiments through robust, efficient comparison to public databases
shbrief/AnVILWorkflow
Runnable workflow package using Terra/GCP resources
shbrief/MetaHarmonizer
Automated metadata harmonization tool/workflow leveraging the gold-standard metadata created from the OmicsMLRepo project
shbrief/awesome-drug-discovery-knowledge-graphs
A collection of research papers, datasets and software related to knowledge graphs for drug discovery. Accompanies the paper "A review of biomedical datasets relating to drug discovery: a knowledge graph perspective" (Briefings in Bioinformatics, 2022)
shbrief/pathml_anvil
Tools for computational pathology
shbrief/aim3
Dissertation Aim 3
shbrief/bioc-rnaseq
Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor
shbrief/biochatter
Backend library for conversational AI in biomedicine
shbrief/Books-
Books for Data Science
shbrief/bsdbdashboard
BugSigDB Dashboard
shbrief/bugphyzz
Harmonized annotation of microbial physiology
shbrief/bugphyzzAnalyses
Analyses with data and signatures imported from the bugphyzz package.
shbrief/code
Compilation of R and Python programming codes on the Data Professor YouTube channel.
shbrief/Comparison_of_DA_microbiome_methods
shbrief/CuratedAtlasQueryR
Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
shbrief/curatedMetagenomicDataODM
Genestack's Open Data Management (ODM) setup for curatedMetagenomicData curation
shbrief/DataHarmonizer
A standardized browser-based spreadsheet editor and validator that can be run offline and locally, and which includes templates for SARS-CoV-2 and Monkeypox sampling data. This project, created by the Centre for Infectious Disease Genomics and One Health (CIDGOH), at Simon Fraser University, is now an open-source collaboration with contributions fr
shbrief/dissertation
Files from my Dissertation
shbrief/ISMB.OSCA
OSCA tutorial at the ISMB 2023
shbrief/jsonvalidate
:heavy_check_mark::interrobang: Validate JSON
shbrief/lab-website-template
(Pre-release) An easy-to-use, flexible website template for labs, with automatic citations, GitHub tag imports, pre-built components, and more
shbrief/langchain
🦜🔗 Build context-aware reasoning applications
shbrief/lefserBenchmarking
Benchmarking examples of lefser against LEfSe and microbiomeMarker
shbrief/Neonatal-Data
shbrief/OmicsMLRepoCuration
shbrief/OmicsMLRepoR
shbrief/PathML_WDL
shbrief/Project_for_Britney
shbrief/quarto-web
Quarto website
shbrief/rshiny_freecodecamp