Projects in Awesome Lists by vjcitn
A curated list of projects in awesome lists by vjcitn .
https://github.com/vjcitn/cshstats
R vignettes/pkgdown for elementary statistics for a summer course
Last synced: 28 Apr 2025
https://github.com/vjcitn/hmdbquery
utilities for querying Human Metabolome Database
Last synced: 28 Apr 2025
https://github.com/vjcitn/ontoprocpre2021
Ontology processing for Bioconductor
bioconductor-package humancellatlas nci-itcr
Last synced: 28 Apr 2025
https://github.com/vjcitn/bioconcotk
Bioconductor components for general cancer genomics
Last synced: 28 Apr 2025
https://github.com/vjcitn/scvir
experimental interface between R and scvi-tools
Last synced: 28 Apr 2025
https://github.com/vjcitn/tenxplore
exploration of 1.3 million neurons published by 10x genomics
Last synced: 28 Apr 2025
https://github.com/vjcitn/biocfhir
Illustration of FHIR V4 Processing with synthea data
Last synced: 28 Apr 2025
https://github.com/vjcitn/htxapp
Explore human transcriptome compendium with focus on heterogeneous metadata
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocbuildtools
R code for managing and analyzing components of Bioconductor software ecosystem
Last synced: 14 Mar 2025
https://github.com/vjcitn/multiassaybt
Google Cloud Platform BigTable back end for MultiAssayExperiment (experimental)
Last synced: 26 Feb 2025
https://github.com/vjcitn/drs4
DrS4 is a small package with some helper functions for learning about S4
Last synced: 26 Feb 2025
https://github.com/vjcitn/bosbioctrain
Training materials for Bioconductor courses in Longwood area, Boston MA
Last synced: 26 Feb 2025
https://github.com/vjcitn/yescds
Cancer Data Science resources for DFCI YES for CURE
Last synced: 28 Apr 2025
https://github.com/vjcitn/bedbaserclient
sketch of Bioconductor-friendly R client for bedbase.org
Last synced: 26 Feb 2025
https://github.com/vjcitn/ogttmetrics
R package for managing and analyzing large collections of oral glucose tolerance tests
Last synced: 26 Feb 2025
https://github.com/vjcitn/gqtlbrowser
ggvis + shiny for interactive gQTL exploration
Last synced: 26 Feb 2025
https://github.com/vjcitn/brcaproteo
A package that illustrates use of CPTAC data on breast cancer in a multiomic context
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocgo
Description of relationships between Gene Ontology and Bioconductor
Last synced: 26 Feb 2025
https://github.com/vjcitn/gggmvis
gene model visualization with ggplot2 idiom
Last synced: 26 Feb 2025
https://github.com/vjcitn/bceqtl
eQTL analysis of breast cancer, data and code underlying the PLoS One paper http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0170181
Last synced: 26 Feb 2025
https://github.com/vjcitn/txreginfra2
Software for exploring transcriptional regulatory networks, currently using MongoDB documents for various genomic feature types
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocedamhacks
Ideas and code snippets for Elixir Biohackathon 2024 project 27
bioconductor edam elixir ontology
Last synced: 07 Apr 2025
https://github.com/vjcitn/ahtestazure
testing and benchmarking AnnotationHub on Azure
Last synced: 26 Feb 2025
https://github.com/vjcitn/curatedmsidata
Data structures managing published data on microsatellite instability in cancer
Last synced: 26 Feb 2025
https://github.com/vjcitn/ahtree
collapsibleTree builder from AnnotationHub
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocedam
preliminary investigation of biocViews in relation to EDAM ontology
Last synced: 26 Feb 2025
https://github.com/vjcitn/bioct2t
Illustrations of work with the T2T genome including eQTL identification using GEUVADIS expression
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocarrayproc
vehicle for summarizing developments on scalable array processing
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocbiocypher
Exploratory interfaces from Bioconductor to Biocypher
Last synced: 08 Apr 2025
https://github.com/vjcitn/biocqe
quality enhancement for Bioconductor infrastructure and related packages
Last synced: 26 Feb 2025
https://github.com/vjcitn/rhsdsclient
Utilities for working with HDF Scalable Data Service in R
Last synced: 26 Feb 2025
https://github.com/vjcitn/littledeep
A little deep learning taken from Intro to Stat Learning with R by James et al.
Last synced: 26 Feb 2025
https://github.com/vjcitn/xenlite
Lightweight approach to managing Xenium experiments
Last synced: 24 Apr 2025
https://github.com/vjcitn/g-dads
Bioconductor's Genomic Data and Analysis Development Services
Last synced: 26 Feb 2025
https://github.com/vjcitn/ontoprocpre314
personal repo separate from Bioc image, but should be kept in sync
Last synced: 26 Feb 2025
https://github.com/vjcitn/browncobre2018
teaching materials for short course
Last synced: 26 Feb 2025
https://github.com/vjcitn/anviltnu
Interfaces to terra-notebook-utils via basilisk, for Bioconductor/R users
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocprojmandemo
Demonstrate github project for Bioc project management
Last synced: 26 Feb 2025
https://github.com/vjcitn/groupact2018
Candidate activities for Bioc2018 Developer Day
Last synced: 26 Feb 2025
https://github.com/vjcitn/txreginfraobsolete
Some Bioconductor-oriented infrastructure for TxRegQuery
Last synced: 26 Feb 2025
https://github.com/vjcitn/humantranscriptomecompendium
Bioconductor infrastructure for 181000 human transcriptome studies, cloud-resident
Last synced: 26 Feb 2025
https://github.com/vjcitn/edxvjc
Material for genomicsclass repo for edX PH 525x on Bioconductor
Last synced: 26 Feb 2025
https://github.com/vjcitn/aacrpamphlet
October 2018 pamphlet on Bioconductor:Cancer
Last synced: 26 Feb 2025
https://github.com/vjcitn/onto2022
Bioc2022 brief talk on ontology and ontoProc
Last synced: 26 Feb 2025
https://github.com/vjcitn/gwaslake
Help explore the MRC Integrative Epidemiology Unit GWAS analysis ecosystem and other GWAS-oriented resources with Bioconductor
Last synced: 26 Feb 2025
https://github.com/vjcitn/lihc450k
demonstrate HDF5 object store backed SE for LIHC 450k data
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocspark
Illustration of Spark-Bioconductor interop, primarily for AnVIL
Last synced: 26 Feb 2025
https://github.com/vjcitn/amarettotools
software for organizing AMARETTO results
Last synced: 26 Feb 2025
https://github.com/vjcitn/zarrbasedspatialtranscriptomics
This R package is devoted to interfacing Zarr-based spatial omics to NHGRI AnVIL
Last synced: 18 Feb 2025
https://github.com/vjcitn/bq4nhs
sketching bigrquery operations for some NHS data
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocoffpiste
Code that aids experts who wish to use incompatible versions of R and Bioconductor
Last synced: 26 Feb 2025
https://github.com/vjcitn/xensce
sketch of S4 methods for Xenium demonstration data in Open Storage Network
Last synced: 26 Feb 2025
https://github.com/vjcitn/abencotools
Support for edx Bioconductor-ENCODE modules
Last synced: 26 Feb 2025
https://github.com/vjcitn/bbsbuildartifacts
Analyze a slice of Bioc Build System artifacts
Last synced: 26 Feb 2025
https://github.com/vjcitn/spatialdata.apps
start shiny apps for SpatialData
Last synced: 18 Feb 2025
https://github.com/vjcitn/rgraphviz
image of Rgraphviz to demonstrate github action maintenance
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocov
An overview of Bioconductor with applications to multiomics, genome representation, and single-cell biologiy
bioconductor bsgenome genomics single-cell tcga
Last synced: 26 Feb 2025
https://github.com/vjcitn/anvilecctasks
Tasks for AnVIL ECC to help evaluate progress in AnVIL development
Last synced: 26 Feb 2025
https://github.com/vjcitn/barca
Bayesian absolute risk from case-control data
Last synced: 26 Feb 2025
https://github.com/vjcitn/arrayexpress
temporary repo for ArrayExpress debugging
Last synced: 26 Feb 2025
https://github.com/vjcitn/biochookchecks
Have a look at collaborative approach to git hook evaluation and programming
Last synced: 26 Feb 2025
https://github.com/vjcitn/bioccdnm
A short course on Bioconductor for Genomic Data Science at Channing Division of Network Medicine
bioconductor data-science genomics r
Last synced: 26 Feb 2025
https://github.com/vjcitn/cdnmscrna
materials for single-cell RNA-seq workshop at Channing
Last synced: 26 Feb 2025
https://github.com/vjcitn/minfi
image of package checked by minimal github action
Last synced: 26 Feb 2025
https://github.com/vjcitn/bioc_bbs2.0
private repo for experimentation with build system infrastructure as code
Last synced: 26 Feb 2025
https://github.com/vjcitn/oc2bioc
simple interface between OpenCRAVAT and Bioconductor
Last synced: 26 Feb 2025
https://github.com/vjcitn/bioccuratedccdg_anvil
Manage concepts related to PFB import from Gen3 to AnVIL; example of CCDG
Last synced: 26 Feb 2025
https://github.com/vjcitn/graben
Provisional package for GRanges:Alternate Back ENds
Last synced: 26 Feb 2025
https://github.com/vjcitn/badvcf
scanVcf throws an error from hts.c when reading this file
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocnihintra
Bioconductor examples for NIH Intramural demonstrations of AnVIL
Last synced: 26 Feb 2025
https://github.com/vjcitn/cmg_eye
CMG_EYE repo for AnVIL days demonstrations
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocbuildtoolsprev
This repository includes resources for illustrating many aspects of software ecosystem design and maintenance relevant to the Bioconductor project.
Last synced: 26 Feb 2025
https://github.com/vjcitn/hsdsrclient
R/bioconductor interface to HSDS (HDF5 object store)
Last synced: 26 Feb 2025
https://github.com/vjcitn/omicidxclient
R functions for querying Sean Davis' omicidx system
Last synced: 26 Feb 2025
https://github.com/vjcitn/but-is-it-literate
historical reflection on literate statistical computing
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocmetadatalab
Exploration of statistical semantics for genomic archive metadata
Last synced: 26 Feb 2025
https://github.com/vjcitn/biocyes
Software for CZI project on Bioconductor diversity and inclusiveness with DFCI YES for CURE
Last synced: 26 Feb 2025