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Title: GitHub - GoekeLab/bambu: Reference-guided transcript discovery and quantification for long read RNA-Seq data

Open Graph Title: GitHub - GoekeLab/bambu: Reference-guided transcript discovery and quantification for long read RNA-Seq data

X Title: GitHub - GoekeLab/bambu: Reference-guided transcript discovery and quantification for long read RNA-Seq data

Description: Reference-guided transcript discovery and quantification for long read RNA-Seq data - GitHub - GoekeLab/bambu: Reference-guided transcript discovery and quantification for long read RNA-Seq data

Open Graph Description: Reference-guided transcript discovery and quantification for long read RNA-Seq data - GitHub - GoekeLab/bambu: Reference-guided transcript discovery and quantification for long read RNA-Seq data

X Description: Reference-guided transcript discovery and quantification for long read RNA-Seq data - GitHub - GoekeLab/bambu: Reference-guided transcript discovery and quantification for long read RNA-Seq data

Opengraph URL: https://github.com/GoekeLab/bambu

X: @github

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Installationhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#installation
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Using precalculated annotation objectshttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Using-precalculated-annotation-objects
Running multiple sampleshttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Running-multiple-samples
Modulating the sensitivity of discovery (pre and post analysis)https://patch-diff.githubusercontent.com/GoekeLab/bambu#Modulating-the-sensitivity-of-discovery-pre-and-post-analysis
Outputhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Output
Visualizationhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Visualization
bambu Advanced Optionshttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Bambu-Advanced-Options
Using a pretrained modelhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Using-a-pretrained-model
De-novo transcript discoveryhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#De-novo-transcript-discovery
Storing and using preprocessed files (rcFiles)https://patch-diff.githubusercontent.com/GoekeLab/bambu#Storing-and-using-preprocessed-files-rcFiles
Tracking read-to-transcript assignmenthttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Tracking-read-to-transcript-assignment
Training a model on another species/dataset and applying ithttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Training-a-model-on-another-speciesdataset-and-applying-it
Quantification of gene expressionhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Quantification-of-gene-expression
Including single exonshttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Including-single-exons
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bambu Argumentshttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Bambu-Arguments
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https://patch-diff.githubusercontent.com/GoekeLab/bambu#installation
https://patch-diff.githubusercontent.com/GoekeLab/bambu#general-usage
herehttps://github.com/GoekeLab/sg-nex-data/blob/master/docs/SG-NEx_Bambu_tutorial.md
Storing and using preprocessed files (rcFiles)https://patch-diff.githubusercontent.com/GoekeLab/bambu#Storing-and-using-preprocessed-files-rcFiles
Use precalculated annotation objectshttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Use-precalculated-annotation-objects
De-novo transcript discoveryhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#De-novo-transcript-discovery
Modulating the sensitivity of discovery (pre and post analysis)https://patch-diff.githubusercontent.com/GoekeLab/bambu#Modulating-the-sensitivity-of-discovery-pre-and-post-analysis
Argumentshttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Arguments
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https://patch-diff.githubusercontent.com/GoekeLab/bambu#transcript-discovery-only-no-quantification
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Modulating the sensitivity of discovery (pre and post analysis)https://patch-diff.githubusercontent.com/GoekeLab/bambu#Modulating-the-sensitivity-of-discovery-pre-and-post-analysis
https://patch-diff.githubusercontent.com/GoekeLab/bambu#using-precalculated-annotation-objects
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ncorehttps://patch-diff.githubusercontent.com/GoekeLab/bambu#bambu-arguments
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https://patch-diff.githubusercontent.com/GoekeLab/bambu#modulating-the-sensitivity-of-discovery-pre-and-post-analysis
Training a model on another species/dataset and applying ithttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Training-a-model-on-another-speciesdataset-and-applying-it
“Transcript discovery only”https://patch-diff.githubusercontent.com/GoekeLab/bambu#transcript-discovery-only-no-quantification
https://patch-diff.githubusercontent.com/GoekeLab/bambu#output
Output Descriptionhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Output-Description
Storing and using preprocessed files (rcFiles)https://patch-diff.githubusercontent.com/GoekeLab/bambu#Storing-and-using-preprocessed-files-rcFiles
https://patch-diff.githubusercontent.com/GoekeLab/bambu#visualization
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paperhttps://www.biorxiv.org/content/10.1101/2022.11.14.516358v1
https://patch-diff.githubusercontent.com/GoekeLab/bambu#using-a-pretrained-model
Training a model on another species/dataset and applying ithttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Training-a-model-on-another-speciesdataset-and-applying-it
https://patch-diff.githubusercontent.com/GoekeLab/bambu#de-novo-transcript-discovery
Using a pretrained modelhttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Using-a-pretrained-model
Training a model on another species/dataset and applying ithttps://patch-diff.githubusercontent.com/GoekeLab/bambu#Training-a-model-on-another-speciesdataset-and-applying-it
Modulating the sensitivity of discovery (pre and post analysis)https://patch-diff.githubusercontent.com/GoekeLab/bambu#Modulating-the-sensitivity-of-discovery-pre-and-post-analysis
Modulating the sensitivity of discovery (pre and post analysis)https://patch-diff.githubusercontent.com/GoekeLab/bambu#Modulating-the-sensitivity-of-discovery-pre-and-post-analysis
https://patch-diff.githubusercontent.com/GoekeLab/bambu#storing-and-using-preprocessed-files-rcfiles
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https://patch-diff.githubusercontent.com/GoekeLab/bambu#fusion-geneisoform-detection
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issuehttps://github.com/GoekeLab/bambu/issues/447
issuehttps://github.com/GoekeLab/bambu/issues/505
issuehttps://github.com/GoekeLab/bambu/issues/380
issuehttps://github.com/GoekeLab/bambu/issues/450
https://patch-diff.githubusercontent.com/GoekeLab/bambu#citation
https://doi.org/10.1038/s41592-023-01908-whttps://doi.org/10.1038/s41592-023-01908-w
https://patch-diff.githubusercontent.com/GoekeLab/bambu#contributors
Ying Chenhttps://github.com/cying111
Andre Simhttps://github.com/andredsim
Yuk Kei Wanhttps://github.com/yuukiiwa
Keith Yeohttps://github.com/keithyjy
Min Hao Linghttps://github.com/lingminhao
Jonathan Goekehttps://github.com/jonathangoeke
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rna-seq https://patch-diff.githubusercontent.com/topics/rna-seq
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bioconductor https://patch-diff.githubusercontent.com/topics/bioconductor
transcriptomics https://patch-diff.githubusercontent.com/topics/transcriptomics
rna-seq-analysis https://patch-diff.githubusercontent.com/topics/rna-seq-analysis
transcript-quantification https://patch-diff.githubusercontent.com/topics/transcript-quantification
bambu https://patch-diff.githubusercontent.com/topics/bambu
long-reads https://patch-diff.githubusercontent.com/topics/long-reads
nanopore-sequencing https://patch-diff.githubusercontent.com/topics/nanopore-sequencing
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