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Abbreviations | Griffith Lab

RNA-seq Bioinformatics

Introduction to bioinformatics for RNA sequence analysis

Abbreviations

Course
  • AWS EC2: Amazon Web Services, Elastic Compute
  • BAM: Binary Sequence Alignment/Map
  • BED: Browser Extensible Data
  • CIGAR: Compact Idiosyncratic Gapped Alignment Report
  • DNA: Deoxyribonucleic Acid
  • FPKM: Fragments Per Kilobase Of Exon Per Million Fragments Mapped
  • FPM: Fragments Per Million Fragments Mapped
  • GFF: Generic Feature Format
  • GTF: Gene Transfer Format
  • IGB: Integrated Genome Browser
  • IGV: Integrative Genome Viewer
  • PCA: Principal Component Analysis
  • polyA: Polyadenylation
  • QC: Quality Control
  • qPCR: Quantitative Polymerase Chain Reaction
  • RNA: Ribonucleic acid
  • RPKM: Reads Per Kilobase Of Exon Per Million Fragments Mapped
  • RPM: Reads Per Million Fragments Mapped
  • RT-PCR: Reverse Transcription Polymerase Chain Reaction
Course
Saving Results | Griffith Lab

RNA-seq Bioinformatics

Introduction to bioinformatics for RNA sequence analysis

Saving Results

Course

If you are performing this tutorial on a cloud instance, everything will be deleted when the instance is destroyed! To package and download everything used or created during the tutorials you can do the following from your cloud terminal session.

First package and compress all of the directories and files in the ‘rnaseq’ directory

cd /home/ubuntu/workspace/
tar -czvf rnaseq_tutorial.tar.gz rnaseq/

Now you can download this to your own computer from here:

To unpack this archive at a terminal session on your own Linux or Mac computer you can do the following:

tar -xzvf rnaseq_tutorial.tar.gz
Course