# Galaxy Outreach Style Guide Based on Laila Los' presentation at GCC 23 as well as previous styles used by James and Anton. This guide is intended for infographics that will be used on Galaxy sites (in center carousel) and all other graphical materials such as tweets, flyers, etc. etc. :::warning This is a draft to be discussed at the next outreach meeting. ::: ## Colors Use the following colors only: ![image](https://hackmd.io/_uploads/B1wCANjAp.png) Slide is [here](https://docs.google.com/presentation/d/1qkhGFDkJr7et6KGNMCmqNZ0fGNXjcLg9ROlEpraiyMI/edit?usp=sharing). ## Fonts Three fonts only: Serif = **Palatino Linotype** Sans-Serif = **Myriad Pro** Fixed width = **Consolas** Fonts are [here](https://drive.google.com/drive/folders/0B7a9KfygumZFeEQwT0FFd1d4QVE?resourcekey=0-OSjkJdKLrtJrIAzYqf6HeQ&usp=sharing). ## Logos Use only official logos from [this](https://drive.google.com/drive/folders/0BycJJtbagAMTfnBuUy1xZDhMbjc4Qk5yMElWaER2QXRsV2tkSHU0V0xHdmJ5RDdDaVRQRGs?resourcekey=0-Y7N_CKv7IW5Du4xXVk7yTg&usp=sharing) folder. ## Padding Text should have padding of 0.1 inch around it. We can adjust this, but some padding should always be present. ## Images Do not use images for decoration purposes - they must have a meaning. Here is an example of a website with a *meaningless* image: ![image](https://hackmd.io/_uploads/Hyl_xBsCT.png) Such image conveys no information whatsoever. ## Applications Use simplest possible apps (easily accessible to anyone: e.g., not Adobe Suite or anything else that requires a license) for generation of images, drawings, and graphs such as Google Drawings for example. In some case paid applications cannot be avoided such as ScreenFlow tool for making screencasts. Save images at .svg because that are resolution free.
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Anton Nekrutenko
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WF Invocation UI BoF

Log in into https://usegalaxy.org

6/27/2024
Lecture 24: Sequence alignment

In the previous lecture we have seen the principle behind dynamic programming. This approach is extremely useful for comparing biological sequences, which is coincidentally one of the main points of this course. This lecture explain how this is done. In writing this text I heavily relied on wonderful course taught by Ben Langmead at Johns Hopkins. The cover image shows pairwise alignments for human, mouse, and dog KIF3 locus from Dubchak et al. 2000. How different are two sequences? Suppose you have two sequences of the same length: A C A T G C C T A A C T G C C T A C How different are they? In other words, how many bases should be change to turn one sequence onto the other: A C A T G C C T A

4/18/2024
Lecture 9: Python 5 - Processing files

Quiz Prep Go to https://colab.research.google.com Log in with your PSU account and create a new notebook Complete the quiz Share you notebook with aun1@psu.edu. Make sure you set me as an editor: Questions Question 1 (50 pts) Using a for loop write code that will calculate the sum of the numbers 1 through 100.

2/13/2024
Lecture 4: Intermission + History of Sequencing

The problem The difficulty with sequencing nucleic acids is nicely summarized by Hutchinson:2007: The chemical properties of different DNA molecules were so similar that it appeared difficult to separate them. The chain length of naturally occurring DNA molecules was much greater than for proteins and made complete sequencing seems unapproachable. The 20 amino acid residues found in proteins have widely varying properties that had proven useful in the separation of peptides. The existence of only four bases in DNA therefore seemed to make sequencing a more difficult problem for DNA than for protein. No base-specific DNAases were known. Protein sequencing had depended upon proteases that cleave adjacent to certain amino acids. It is therefore not surprising that protein-sequencing was developed before DNA sequencing by Sanger and Tuppy:1951.

1/22/2024
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