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
  2. Using kallisto abundance files for differential expression analysis. kallisto abundance.h5 -> tximport -> DESeq2
  3. Installing necessary programs and packages: Install Packages

About the webpage and author

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