Question: Galaxy 101 Tutorial UCSC Browser version
1
gravatar for choonoo
4.1 years ago by
choonoo10
United States
choonoo10 wrote:

Hi there,

Not sure which version of UCSC Genome Browser was used for the Galaxy 101 Tutorial. I have a different set of options in section 1.0 of the tutorial (group: Genes and Gene Prediction instead of Genes and Gene Prediction Tracks) and again in section 1.1 (group: Variation or Repeats instead of Variation and Repeats) which gives a different set of options for track and table.  These slight differences give a different answer in the end.  Am I missing something?

Thanks so much!

ADD COMMENTlink modified 4.1 years ago by Jennifer Hillman Jackson25k • written 4.1 years ago by choonoo10

To confirm the groups and tracks at UCSC: You have the group for Genes mapped correctly. Choose Variation for the other (dbSNP track). For the tracks, just pick the most current release, using the default, primary table.

ADD REPLYlink modified 4.1 years ago • written 4.1 years ago by Jennifer Hillman Jackson25k
0
gravatar for choonoo
4.1 years ago by
choonoo10
United States
choonoo10 wrote:

Galaxy 101 Tutorial

how do i interpret the results obtained from galaxy 101 ........... i'm a bigneer so can u plz help me ?

ADD COMMENTlink written 4.1 years ago by choonoo10
0
gravatar for Jennifer Hillman Jackson
4.1 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Galaxy and external browser alike make changes to user interfaces over time, but the basic concepts and methods of this particular tutorial are still valid. Small differences in results were expected even in the short term - some of the inputs are updated nightly (for example, all tracks sourced from Genbank, obtained through UCSC and many other sources, are - including RefSeq), others at regular intervals (such as dbSNP). These differences are not important for the overall tutorial goals.

The results are just a simple comparison answering the original question "The list of coding exon having the highest number of single nucleotide polymorphisms on chromosome 22". It is not particularly relevant from a scientific perspective. The goals of the tutorial are to aid new users in becoming familiar with the user interface and basic functionality: data importing, interval comparisons, simple manipulations, workflow creation and re-use, plus history sharing.

When you are ready to move on, there are additional tutorials available to explore on the public Main Galaxy server itself and others donated by the community in our wiki that in most cases can be executed on Main.
http://wiki.galaxyproject.org/Support#Learning_Hub

As you advance, the 'Resource' on the Teaching hub can be explored for more in-depth guided analysis examples. Keep in mind that these are designed to be often run in a cloud Galaxy environment (may utilize tools not included on the Main instance) and are formatted as workshop resources. However, they are still a great option if you are unable to attend a live hosted tutorial Event (http://wiki.galaxyproject.org/Events)l, or just wish to prepare early before attending one. "Teach" will be filling out more in the near term as the newly formed Galaxy Training Network (http://wiki.galaxyproject.org/Teach/GTN) works towards its current goals.

Hopefully this helps with the first step, our 101, and with future learning, Jen, Galaxy team

ADD COMMENTlink written 4.1 years ago by Jennifer Hillman Jackson25k
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