Explore @rnabioco Open Source projects

RNA Bioscience Initiative (RBI) (@rnabioco)

rnabioco

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clustifyr

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

valr

Genome Interval Arithmetic in R

djvdj

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

ggtrace

ggplot2 geoms to outline groups of data points

practical-data-analysis

Short course using RStudio for biological data analysis

clustifyrdata

Reference data for cell-type assignment with clustifyr

nihexporter

An R data package for NIH EXPORTER data

scraps

Single-cell RNA Processing Software

clustifyrdatahub

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

cellar

scRNA-Seq analysis vignettes

someta

Inclusion of processed cell metadata improves single cell sequencing analysis reproducibility and accessibility

scbp

utility boilerplate single cell functions

raer

Characterize A-to-I RNA editing in bulk and single-cell RNA sequencing experiments

rnaedits

Analysis of A-to-I RNA editing during hibernation

squirrelbox

Shiny app to browse hibernating ground squirrel brain tissue RNA-seq data, new genome assembly and transcriptome annotation.

scRNA-seq-Cell-Ref-Matrix

A reference matrix atlas of all single cell RNA-seq data on NCBI GEO for mice and humans

scrna-subsets

Recovery of transcriptome subsets from pooled single cell RNA sequencing libraries

scrapR

R package for importing and processing scraps reference and output

molb-7950

MOLB 7950: Informatics and Statistics for Molecular Biology

cellrangerAWS

Command line tool to run Cell Ranger using AWS

medulloblast

single cell RNA-seq survey of childhood medulloblastoma

rhumba

Snakemake pipelines for RNA sequencing data

rnastruct

Pipeline for investigating RNA structure-Seq data

spatialshiny

Browser for Spatial Transcriptomics, built on R Shiny

tRNA004

Nanopore direct tRNA sequencing method refinement and RNA modification benchmarking

deepsort-rs

sort demultiplexed reads based on deeplexicon outputs

fuzzyfastq-rs

Rust implementation of fuzzy matching of sequences in FASTQ files

gene_model_plot

Python package designed to visualize gene models from GTF files and variants from VCF files.

Jupyter Notebook

clustifyr-web-app

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

rbi-website

Website for the RNA Bioscience Initiative at CU Anschutz

bmsc-7810-pbda

BMSC 7810: Practical biological data analysis with R/RStudio

scinter

overview of single cell visualization tools

visium-probe-design

Generate probes for the 10x Genomics fixed assay

detectrms-rs

Fast detection of rna modifications sites