Owner
gagneurlab
21 indexed repositories · View on GitHub
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drop
Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders
Python · 172 stars
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scooby
scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.
Python · 68 stars
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OUTRIDER
OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data
R · 58 stars
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FRASER
FRASER - Find RAre Splicing Events in RNA-seq
R · 57 stars
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MMSplice_MTSplice
Tissue-specific variant effect predictions on splicing
Jupyter Notebook · 44 stars
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Python · 42 stars
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concise
Concise: Keras extension for regulatory genomics
Jupyter Notebook · 36 stars
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dependencies_DNALM
Code repository for the manuscript: Nucleotide dependency analysis of DNA language models reveals genomic functional elements
Jupyter Notebook · 30 stars
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FRASER-analysis
Accompanying analysis code for the FRASER manuscript
R · 25 stars
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Jupyter Notebook · 24 stars
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Python · 17 stars
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R · 7 stars
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Jupyter Notebook · 7 stars
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MMSplice_paper
Analysis code of MMSplice paper
Jupyter Notebook · 5 stars
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R · 4 stars
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wBuild
R project report builder
Python · 4 stars
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OUTRIDER-analysis
Accompanying analysis repository for the OUTRIDER paper
TeX · 3 stars
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py_outrider
py_outrider: a generalized framework for context-dependent outlier detection in omics data
Python · 3 stars
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FRASER-2.0-analysis
This repository contains the analysis code for the FRASER 2.0 manuscript.
R · 3 stars
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Python · 2 stars
- 1 more repository lives on View on GitHub
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gagneurlab/OUTRIDER-analysis#1 · 4 comments · 0 reactions · 0 assignees ·
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gagneurlab/MMSplice_paper#1 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/FRASER-analysis#1 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/FRASER-analysis#2 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/FRASER-analysis#3 · 1 comment · 0 reactions · 0 assignees ·
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leafcutterMD Open
gagneurlab/FRASER-analysis#4 · 0 comments · 0 reactions · 0 assignees ·
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Unspecific results Open
gagneurlab/FRASER-analysis#5 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/FRASER-analysis#6 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/FRASER-analysis#8 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/FRASER-analysis#9 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/rCube#2 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/rCube#3 · 2 comments · 0 reactions · 0 assignees ·
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gagneurlab/concise#1 · 0 comments · 0 reactions · 1 assignee ·
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gagneurlab/concise#4 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/concise#15 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/OCR-Stats#1 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/py_outrider#3 · 2 comments · 0 reactions · 0 assignees ·
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gagneurlab/py_outrider#4 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/py_outrider#5 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/py_outrider#7 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/MMSplice_MTSplice#51 · 2 comments · 0 reactions · 0 assignees ·
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enhancement
gagneurlab/MMSplice_MTSplice#52 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/MMSplice_MTSplice#53 · 2 comments · 0 reactions · 0 assignees ·
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gagneurlab/MMSplice_MTSplice#60 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/MMSplice_MTSplice#61 · 0 comments · 1 reaction · 0 assignees ·
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gagneurlab/MMSplice_MTSplice#63 · 1 comment · 0 reactions · 0 assignees ·
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TSplice architecture Open
gagneurlab/MMSplice_MTSplice#68 · 0 comments · 0 reactions · 0 assignees ·
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kipoiseq problem Open
gagneurlab/MMSplice_MTSplice#69 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/MMSplice_MTSplice#70 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/MMSplice_MTSplice#71 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/MMSplice_MTSplice#72 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/FRASER-2.0-analysis#1 · 1 comment · 0 reactions · 0 assignees ·
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found not dataset Open
gagneurlab/FRASER-2.0-analysis#2 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/spectralis#1 · 1 comment · 1 reaction · 0 assignees ·
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gagneurlab/spectralis#3 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/spectralis#4 · 1 comment · 2 reactions · 0 assignees ·
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gagneurlab/spectralis#5 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/spectralis#6 · 0 comments · 0 reactions · 0 assignees ·
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low priority
gagneurlab/wBuild#1 · 0 comments · 0 reactions · 0 assignees ·
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Test wBuild! Opengood first issue help wanted
gagneurlab/wBuild#2 · 1 comment · 0 reactions · 0 assignees ·
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Search HTML output Openenhancement Hacktoberfest help wanted
gagneurlab/wBuild#3 · 0 comments · 0 reactions · 0 assignees ·
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Web render issues Opengood first issue low priority
gagneurlab/wBuild#5 · 0 comments · 0 reactions · 0 assignees ·
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Python binding Openenhancement good first issue help wanted low priority
gagneurlab/wBuild#6 · 1 comment · 0 reactions · 0 assignees ·
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gagneurlab/wBuild#9 · 1 comment · 0 reactions · 1 assignee ·
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gagneurlab/wBuild#14 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/wBuild#15 · 0 comments · 0 reactions · 0 assignees ·
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invalid
gagneurlab/wBuild#16 · 0 comments · 0 reactions · 0 assignees ·
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gagneurlab/wBuild#17 · 3 comments · 1 reaction · 1 assignee ·
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gagneurlab/wBuild#33 · 0 comments · 0 reactions · 0 assignees ·
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Clarification on normalization of predicted RNA and ATAC-seq outputs for motif deletion inference Open
gagneurlab/scooby_reproducibility#4 · 0 comments · 0 reactions · 0 assignees ·
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