Bimber Lab Internal Projects

CellMembrane

An R package with wrappers and pipelines for single cell RNA-seq analysis

OOSAP

OHSU-ONPRC Single-cell Analysis Package

RIRA

Code for utility of RIRA for classification of cell types/phenotypes

BimberLabKeyModules

This holds LabKey Server modules used by the Bimber Lab that are private or unlikely to be of general interest

deseq2shiny

a web-based R shiny application that wraps DESeq2 R package

docker-base

Designed to build a base docker image for R packages

mcc-website

This project holds the content for the MCC public website

Rdiscvr

This in an R package that provides helper functions to query data in LabKey/DISCVR modules.

ShinySDA

Shiny tool to load and browse SDA objects

ShinySDAscSeq

A shinydashboard template

ShinySeuratHelper

Shiny Seurat Helper (SSH)

DevOps

Tools to manage software and repositories for the Bimber Lab

DockerBase

This will manage and build base docker images designed to be used by other lab repos

GxfUtils

Yet Another Set of Tools to Manipulate GFF/GTF Files

LabDevKitModules

Contains the LDK LabKey module, which has lower-level code and is a dependency of several other modules

library

Reference V, D, J, C genes

loe

:exclamation: This is a read-only mirror of the CRAN R package repository. loe — Local Ordinal Embedding

VariantAnnotation

A set of scripts to build custom funcotator-compatible data sources

WorkbookSync