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ameloblast-scrnaseq

scRNA-seq analysis of ameloblasts

antigen-tracking

Molecular tracking devices quantify in vivo antigen distribution and archiving

beryllium_cd4_scrnaseq

bigbio

Exploratory analysis of big biological data with R (WIP)

bmsc-7810-pbda

BMSC 7810: Practical biological data analysis with R/RStudio

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

cellar

scRNA-Seq analysis vignettes

cellranger

10x Genomics Single Cell Analysis

cellrangeraws

Command line tool to run Cell Ranger using AWS

cellxgene

An interactive explorer for single-cell transcriptomics data

clustifyr

Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets

clustifyr-web-app

An R Shiny app to help with scRNA-seq benchmarking and analysis with clustifyr

clustifyrdata

Reference data for cell-type assignment with clustifyr

clustifyrdatahub

External single-cell mRNA sequencing data sets for use with clustifyr

deepsort-rs

sort demultiplexed reads based on deeplexicon outputs

detectrms-rs

Fast detection of rna modifications sites

djvdj

An R package to analyze single-cell V(D)J data

fuzzyfastq-rs

Rust implementation of fuzzy matching of sequences in FASTQ files

ggtrace

ggplot2 geoms to outline groups of data points

koenigshoff-murine-copd

RBI pilot award to M. Koenigshoff to study alveolar regeneration in a murine COPD model

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

lnsc-cell-browser

LNSC cell browser

lsf_tutorial

An introduction to the LSF Job Scheduler

ltx-rejection-map

scRNA-seq analysis of a mouse model of lung rejection

lung-scrna

LPS induced lung regeneration UCSC cellbrowser:

medulloblast

single cell RNA-seq survey of childhood medulloblastoma

molb-7950

MOLB 7950: Informatics and Statistics for Molecular Biology

molb-7950-data

Data repository for MOLB 7950

morrison-chikv

Code used to generate scRNA-seq figures from Carpentier et al.