YangLab@Northwestern

All

18 repositories

segmeter
Public
Framework designed for evaluating the performance of genomic interval query tools
Python
•0•0•0•0•Updated Feb 5, 2025Feb 5, 2025
DeepChopper
Public
Language models identify chimeric artificial reads in NanoPore direct-RNA sequencing data.
bioinformatics deep-learning nanopore biology long-read-sequencing
Rust
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Apache License 2.0
•0•4•0•0•Updated Feb 4, 2025Feb 4, 2025
yanglab-guide
Public
The repo contain content about yang's lab guide.
development guide lab
Python
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MIT License
•2•2•0•29•Updated Feb 4, 2025Feb 4, 2025
pxblat
Public
PxBLAT: An Efficient and Ergonomic Python Binding Library for BLAT
python c bioinformatics cpp alignment blat pybind11 sequence-analysis
C
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Other
•0•17•1•1•Updated Feb 3, 2025Feb 3, 2025
genogrove
Public
C++ Genomic Interval B+ Tree Library
C++
•
GNU General Public License v3.0
•0•3•0•1•Updated Jan 24, 2025Jan 24, 2025
SpliceAI-BED
Public
Run SpliceAI on BED files
Python
•
MIT License
•0•1•0•0•Updated Jan 24, 2025Jan 24, 2025
trans_lncRNA
Public
Public repository containing research code for the trans-acting lncRNA project
R
•
MIT License
•0•0•0•0•Updated Jan 16, 2025Jan 16, 2025
ScanITD
Public
A python tool to detect internal tandem duplication with robust variant allele frequency estimation
Python
•
MIT License
•3•11•0•0•Updated Jan 3, 2025Jan 3, 2025
ScanNeo2
Public
Snakemake-based computational workflow for neoantigen prediction from diverse sources
snakemake gene-fusion indels peptide snakemake-workflow splicing epitope neoantigens exitron neoepitope
Python
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MIT License
•1•12•9•0•Updated Sep 2, 2024Sep 2, 2024
ScanExitron
Public
A computational workflow for exitron splicing identification
Shell
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MIT License
•6•13•0•0•Updated Aug 30, 2024Aug 30, 2024
ylab-hi.github.io
Public
Official website for Yang Lab
SCSS
•0•0•0•0•Updated Aug 3, 2024Aug 3, 2024
docker-images
Public
docker-images
Dockerfile
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MIT License
•0•1•0•0•Updated Apr 24, 2024Apr 24, 2024
ScanExitronLR
Public
A package for the characterization and quantification of exitron splicing events in long-read RNA-seq
python bioinformatics-tool long-read-data
Python
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MIT License
•0•6•0•1•Updated Aug 5, 2023Aug 5, 2023
BINARY
Public
BIoiNformatics Algorithms libRarY aka BINARY
template library bioinformatics algorithm cpp high-performance concepts vcf ranges cpp20-standard
C++
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Apache License 2.0
•0•2•2•1•Updated Dec 21, 2022Dec 21, 2022
ScanNeo
Public
A pipeline for identifying indel derived neoantigens using RNA-Seq data
Python
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Other
•7•29•6•0•Updated Aug 29, 2022Aug 29, 2022
kent
Public
UCSC Genome Browser source tree. Stable branch: "beta".
C
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Other
•91•0•0•0•Updated Jun 9, 2022Jun 9, 2022
pbsim2
Public
PBSIM2: a simulator for long read sequencers with a novel generative model of quality scores
C++
•
GNU General Public License v2.0
•15•0•0•0•Updated Feb 18, 2022Feb 18, 2022
lncGSEA
Public
An R package to identify lncRNA associated pathway
R
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MIT License
•0•0•2•0•Updated Aug 13, 2020Aug 13, 2020