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NGS Data Analysis, 🛠
FastQC
FASTX-Toolkit
NGS QC Toolkit, 🛠
…
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🛠
- FastQC
- FASTX-Toolkit
- NGS QC Toolkit
🛠
- Trimmomatic
- FASTX-Toolkit
- NGS QC Toolkit
⚽
- To locate the origins of the reads in the genome
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Mapping rate
- most aligners find unique genomic position matches for 70%–75% of sequence reads only
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🛠
- BWA 🏁 🎯
- Bowtie/ Bowtie2 🏁🏁
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🛠
- Integrative Genomics Viewer (IGV)
- EagleView
- UCSC & Ensembl genome browsers
- 🛠 -- TOOLS
- ⚽ -- GOALS
- 🟢 -- IDEAL
- 🟠 -- ACCEPTABLE
- ⚠ -- ATTENTION REQUIRED
- 💢 -- CHALLENGES
Licensed under an Attribution-NonCommercial 4.0 International license.
(CC BY-NC 4.0)
© Akshay Shirsath (2021)
💢
- Polymorphism/ mutation 🎗
- sequencing errors ❗
- millions of reads 💰