YangLab@Northwestern

All

18 repositories

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•1•Updated Mar 3, 2025Mar 3, 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•25•Updated Mar 3, 2025Mar 3, 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 Mar 3, 2025Mar 3, 2025
segmeter
Public
Framework designed for evaluating the performance of genomic interval query tools
Python
•0•0•0•0•Updated Mar 2, 2025Mar 2, 2025
ylab-hi.github.io
Public
Official website for Yang Lab
SCSS
•0•0•0•0•Updated Feb 16, 2025Feb 16, 2025
genogrove
Public
C++ Genomic Interval B+ Tree Library
C++
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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
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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
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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
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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•13•10•0•Updated Sep 2, 2024Sep 2, 2024
ScanExitron
Public
A computational workflow for exitron splicing identification
Shell
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MIT License
•6•12•0•0•Updated Aug 30, 2024Aug 30, 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++
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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