Page Index - labbces/SpliceScape GitHub Wiki

35 page(s) in this GitHub Wiki:

• Home
• SpliceScape
• 📊 The diagram below provides an overview of the SpliceScape workflow, from the initial input files to the final results.
• ✅ The pipeline is divided into distinct stages:
• Project overview
• 0.1 Pre‐processing: SRR metadata DB construction
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• 0.2 Filter SRRs
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• 0.3 Input Files: Preparing Genome and Transcriptome Data
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• 1.0 SpliceScapeReads Processing
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• 1.1 SpliceScape: Downloading Raw Reads
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• 1.2 SpliceScape: Read Cleaning with BBDuK
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• 1.3 SpliceScape: Genome Index Generation with STAR
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• 1.4 SpliceScape: Read Mapping with STAR
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• 1.5 SpliceScape: Splicing Analysis with SGSeq
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• 1.6 SpliceScape: Splicing Analysis with MAJIQ
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• 2.1 Post‐Processing: SGSeq Parser
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• 2.2 Post‐Processing: MAJIQ Parser
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• 2.3 Post‐Processing: SGSeq Parser
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• 3. Final tables
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• template
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