RNA Bioscience Initiative (RBI)

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96 repositories

aa-tRNA-seq-pipeline
Public
Snakemake pipeline to process nanopore aa-tRNA-seq data
rna-seq snakemake nanopore-sequencing
rna-seq snakemake nanopore-sequencing
Python
•
MIT License
•2•3•3•1•Updated Mar 8, 2026Mar 8, 2026
clover
Public
R package for analysis of nanopore tRNA sequencing data
rna-seq bioconductor trna-annotation
rna-seq bioconductor trna-annotation
R
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Other
•0•0•5•1•Updated Mar 3, 2026Mar 3, 2026
squiggy-positron
Public
Positron extension to visualize POD5 nanopore signals
visualization api nanopore
visualization api nanopore positron squiggle
TypeScript
•
MIT License
•0•0•19•5•Updated Mar 3, 2026Mar 3, 2026
morrison-chronic-chikv-xenium
Public
Quantification of CHIKV RNA at 28 dpi using spatial transcriptomics
R
•0•1•0•0•Updated Feb 27, 2026Feb 27, 2026
morrison-chronic-chikv
Public
Quantification of CHIKV RNA at 28 dpi using scRNA-seq
HTML
•0•1•0•0•Updated Feb 27, 2026Feb 27, 2026
aform-rs
Public
TUI for Stockholm MSA viz/edit
rna-structure msa stockholm
rna-structure msa stockholm tui-rs
Rust
•0•0•2•0•Updated Feb 21, 2026Feb 21, 2026
bodhi-slurm-migration
Public
Bodhi slurm migration guide
Shell
•0•0•2•0•Updated Feb 18, 2026Feb 18, 2026
2a-peptide-search
Public
HMM models of the 2A peptide and DB search results
Python
•0•0•3•1•Updated Feb 12, 2026Feb 12, 2026
scraps
Public
Single Cell RNA PolyA Site Discovery
Python
•
MIT License
•4•11•6•0•Updated Jan 28, 2026Jan 28, 2026
hesselberthlab.org
Public
Lab website
HTML
•
MIT License
•0•0•0•1•Updated Jan 24, 2026Jan 24, 2026
ucsc_snapshots
Public
Robotically fetch images for specified regions from the UCSC Genome Browser
Python
•0•5•0•0•Updated Jan 18, 2026Jan 18, 2026
valr
Public
Genome Interval Arithmetic in R
genome interval-arithmetic bedtools
genome interval-arithmetic bedtools
R
•
Other
•24•94•0•0•Updated Jan 11, 2026Jan 11, 2026
remote-ssh-positron
Public
Set up Alpine to use Positron
Shell
•0•3•0•0•Updated Jan 7, 2026Jan 7, 2026
fcount-rs
Public
Rust-based exon counting optimized for RNA-seq
rna-seq featurecounts
rna-seq featurecounts
Rust
•
MIT License
•0•1•2•1•Updated Jan 4, 2026Jan 4, 2026
charmer-rs
Public
TUI to monitor snakemake pipelines
snakemake snakemake-pipeline
snakemake snakemake-pipeline
Rust
•
MIT License
•0•0•0•2•Updated Jan 1, 2026Jan 1, 2026
cpp11bigwig
Public
Read bigWig and bigBed files in R
C
•
Other
•1•3•0•0•Updated Dec 11, 2025Dec 11, 2025
molb-7950
Public
MOLB 7950: Informatics and Statistics for Molecular Biology
HTML
•0•4•9•1•Updated Oct 20, 2025Oct 20, 2025
aa-tRNA-seq
Public
Public-facing repo for aa-tRNA-seq pre-print
Python
•0•2•0•0•Updated Oct 8, 2025Oct 8, 2025
remora
Public
Methylation/modified base calling separated from basecalling.
Python
•
Other
•26•0•0•0•Updated Aug 20, 2025Aug 20, 2025
pneuro-onc-browsers
Public
Pediatric Neuro-oncology Cell Atlas
TeX
•
MIT License
•0•0•1•0•Updated Aug 11, 2025Aug 11, 2025
raer
Public
Characterize A-to-I RNA editing in bulk and single-cell RNA sequencing experiments
rna-seq-analysis single-cell-rna-seq bioconductor-package
rna-seq-analysis single-cell-rna-seq bioconductor-package single-cell-analysis
C
•
Other
•2•10•2•0•Updated Jul 15, 2025Jul 15, 2025
antigen-exchange-xenium
Public
Xenium analysis for Sheridan et al.
R
•0•0•0•0•Updated Jul 13, 2025Jul 13, 2025
antigen-exchange
Public
Analysis for Sheridan et al.
R
•0•0•0•0•Updated Jul 13, 2025Jul 13, 2025
purrr
Public
A functional programming toolkit for R
R
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Other
•292•0•0•0•Updated Jun 6, 2025Jun 6, 2025
yeastgenes
Public
R data package for yeast gene expression
R
•
Other
•0•0•0•0•Updated Jun 2, 2025Jun 2, 2025
clustifyr
Public
Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
rna-seq clusters marker-genes
rna-seq clusters marker-genes single-cell-rna-seq assign-identities
R
•
MIT License
•15•124•0•0•Updated Apr 16, 2025Apr 16, 2025
aa-tRNA-seq-analysis-template
Public
Quarto template for aa-tRNA-seq anaysis
rna-seq-analysis quarto-template
rna-seq-analysis quarto-template
R
•
MIT License
•0•0•0•0•Updated Mar 21, 2025Mar 21, 2025
nihexporter
Public
An R data package for NIH EXPORTER data
spending grants nih
spending grants nih
R
•
Other
•13•15•1•0•Updated Mar 8, 2025Mar 8, 2025
modkit
Public
A bioinformatics tool for working with modified bases
Rust
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Other
•26•0•0•0•Updated Mar 6, 2025Mar 6, 2025
squigualiser
Public
Visualise and analyse nanopore (ONT) raw signals
Python
•
MIT License
•4•0•0•0•Updated Jan 24, 2025Jan 24, 2025