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# Biomedical-Data-Science
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# Biomedical-Data-Science
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This is a graduate-level course covering the fundamentals of transparent and reproducible bioinformatics, targeted towards biomedical students.
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Lab01.ipynb:
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Introduces basic Unix commands commonly used in bioinformatics workflows.
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Covers commands like ls, cd, and file manipulation in a Unix environment.
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Lab02.ipynb:
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Focuses on Unix scripting to automate tasks in bioinformatics.
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Demonstrates how to create simple scripts using bash for handling repetitive tasks.
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Lab03.ipynb:
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Introduces Python programming for bioinformatics applications.
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Covers basic syntax, data types, and control structures relevant to biological data analysis.
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Lab04.ipynb:
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Provides a setup guide and initial steps for using bioinformatics tools.
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Guides users through configuring their environment for data analysis.
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Lab05.ipynb:
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Continues with setting up the computational environment for bioinformatics workflows.
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Covers additional configuration steps and essential bioinformatics software.
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Lab06.ipynb:
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Further explores bioinformatics tools and environment setup for analysis.
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Introduces key tools and libraries used in data handling and analysis.
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Lab07.ipynb:
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Introduces Git and GitHub for version control in bioinformatics projects.
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Guides users through repository creation, committing changes, and collaborating on code.
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Lab08.ipynb:
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Explores the use of R in bioinformatics through Google Colaboratory.
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Introduces basic R syntax and data manipulation techniques in a cloud environment.
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Lab09.ipynb:
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Introduces the use of Salmon for transcript quantification in RNA-seq data.
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Demonstrates how to align reads and interpret output files for gene expression analysis.
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Lab10.ipynb:
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Guides users through working with a reference genome and sequence data.
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Demonstrates file manipulation using commands like head and visualization of genomic data.
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Lab11.ipynb:
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Covers the setup of Miniconda and Mamba for managing bioinformatics environments.
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Introduces the use of Mamba for faster package management and environment handling.

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