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# **AMD Bioinformatics**

Easy to follow bioinformatics workflows on the command line, bash (Linux), R, Python, and github.

## RNA-Seq

1. Going from raw sequencing reads to kallisto pseudoalignment mapping.
    [Raw Sequencing Reads -> filtering(FastQC, TrimGalore) -> kallisto](https://aaronmitchd.github.io/RNA_Seq/raw_seq_reads_to_kallisto.html)
2. Using kallisto abundance files for differential expression analysis.
    [kallisto abundance.h5 -> tximport -> DESeq2](https://aaronmitchd.github.io/RNA_Seq/kallisto_h5_to_tximport_to_DESeq2_eval.html)
3. Installing necessary programs and packages: [Install Packages](https://aaronmitchd.github.io/RNA_Seq/Install-Packages.html)

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### About the webpage and author
#### [Github](https://aaronmitchd.github.io/RNA_Seq/About-and-References.html)
#### [Google Scholar Citations](https://tinyurl.com/AMD-GS-CV)


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