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21 repositories

FRmatch
Public
Cell type matching in single-cell RNA-sequencing data using FR-Match
r scrna-seq single-cell
r scrna-seq single-cell scrna-seq-analysis cell-type-matching cell-types
R
•
Other
•2•22•0•0•Updated Aug 9, 2026Aug 9, 2026
ribovore
Public
Perl
•
Other
•6•17•3•0•Updated Aug 8, 2026Aug 8, 2026
NSForest
Public
A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA sequencing
machine-learning random-forest decision-trees
machine-learning random-forest decision-trees single-cell marker-genes
HTML
•
Other
•24•70•1•0•Updated Aug 7, 2026Aug 7, 2026
scFPCDE
Public
Functional PCA-based differential expression analysis for single-cell pseudotime trajectories
R
•
Other
•1•1•0•0•Updated Aug 7, 2026Aug 7, 2026
Magic2
Public
Acedb object oriented database engine and AceView/MAGIC RNA_seq pipeline, NCBI/NLM/NIH
C
•5•5•0•0•Updated Jul 29, 2026Jul 29, 2026
Nelson_Lab_Influenza_Strain_Names
Public
Python
•0•0•0•0•Updated Jul 22, 2026Jul 22, 2026
pm4ngs
Public
Project Manager for NGS data analysis
bioinformatics next-generation-sequencing rnaseq
bioinformatics next-generation-sequencing rnaseq ngs-analysis ngs-pipeline cwl-workflow chipseq chipexo
Python
•
Other
•10•31•0•13•Updated Jul 10, 2026Jul 10, 2026
cwl-ngs-workflows-cbb
Public
A set of CWL tools and workflows used by NCBI Computational Biology Branch for NGS data analysis
ngs ngs-analysis ngs-pipeline
ngs ngs-analysis ngs-pipeline cwl-workflow
Common Workflow Language
•
Other
•11•29•0•0•Updated Jun 29, 2026Jun 29, 2026
vadr
Public
Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
Perl
•
Other
•27•119•10•0•Updated Jun 18, 2026Jun 18, 2026
CorpusBenchmarking
Public
Python
•0•3•0•0•Updated Jun 5, 2026Jun 5, 2026
ctcae-ae-tracking
Public
Python
•0•1•0•0•Updated Mar 9, 2026Mar 9, 2026
TPMCalculator
Public
TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
rna-seq ngs tpm
rna-seq ngs tpm
C++
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Other
•34•138•15•0•Updated Jan 28, 2026Jan 28, 2026
gtax
Public
GTax python package provides tools for the creation of the GTax sequence-based database. This database includes one assembly per organism deposited in the NCBI …
Python
•
Other
•4•7•2•0•Updated Jan 28, 2026Jan 28, 2026
BAMscale
Public
BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy visualization of common…
C
•
Other
•17•74•1•1•Updated Dec 4, 2024Dec 4, 2024
histonedb
Public
JavaScript
•10•3•0•4•Updated Apr 5, 2024Apr 5, 2024
pm4ngs-chipseq
Public
Jupyter Notebook
•
Other
•4•0•1•0•Updated Jun 21, 2023Jun 21, 2023
pm4ngs-transcriptome-annotation
Public
Jupyter Notebook
•
Other
•1•1•0•0•Updated Oct 25, 2021Oct 25, 2021
pm4ngs-chipexo
Public
Jupyter Notebook
•
Other
•3•1•0•0•Updated Jul 7, 2021Jul 7, 2021
pm4ngs-rnaseq
Public
Jupyter Notebook
•
Other
•3•0•0•0•Updated Jul 7, 2021Jul 7, 2021
cloud-transcriptome-annotation
Public
Time and cost comparison on GCP and AWS for transcriptome annotation
aws jupyter-notebook gcp
aws jupyter-notebook gcp transcriptome-annotation
Jupyter Notebook
•
Other
•5•3•0•0•Updated Nov 12, 2020Nov 12, 2020
dcode-cape
Public
C++
•
Other
•7•1•0•0•Updated May 23, 2020May 23, 2020

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NLM Division of Intramural Research

All

All

21 repositories

FRmatch

ribovore

NSForest

scFPCDE

Magic2

Nelson_Lab_Influenza_Strain_Names

pm4ngs

cwl-ngs-workflows-cbb

vadr

CorpusBenchmarking

ctcae-ae-tracking

TPMCalculator

gtax

BAMscale

histonedb

pm4ngs-chipseq

pm4ngs-transcriptome-annotation

pm4ngs-chipexo

pm4ngs-rnaseq

cloud-transcriptome-annotation

dcode-cape

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Repositories list

21 repositories