Frequently asked mailing list questions: Difference between revisions
No edit summary |
(→Genome) |
||
Line 44: | Line 44: | ||
but it would need to be run four times: GGACC, GGCCC, GGGCC, GGTCC and the output combined. findCutters does it all in one command. | but it would need to be run four times: GGACC, GGCCC, GGGCC, GGTCC and the output combined. findCutters does it all in one command. | ||
'' | ''GO'' | ||
*[http://www.soe.ucsc.edu/pipermail/genome/2008-June/016605.html All KGs that have a particular GO id] | *[http://www.soe.ucsc.edu/pipermail/genome/2008-June/016605.html All KGs that have a particular GO id] | ||
*[http://www.soe.ucsc.edu/pipermail/genome/2008-June/016527.html Cow genes for a GO id] | *[http://www.soe.ucsc.edu/pipermail/genome/2008-June/016527.html Cow genes for a GO id] |
Revision as of 23:56, 19 January 2011
This page is intended to be a collection of previously answered questions on the Genome and Genome-Mirror mailing lists that are useful for answering repeat questions.
Genome
If a user is looking for human or mouse genome updates, point them to:
To report errors in the human or mouse assemblies:
For users looking for help identifying effects of their novel SNPs, send them to (thanks Angie):
I have a list of Gene Symbols and I would like to get corresponding sequences for them.
Sharing custom tracks
Help me create a Custom Track
- ...with shades of grey.
- ...with
- http://www.cse.ucsc.edu/pipermail/genome/2006-July/011100.html
- http://www.cse.ucsc.edu/pipermail/genome/2006-September/011672.html
- http://www.cse.ucsc.edu/pipermail/genome/2006-September/011712.html
- http://www.cse.ucsc.edu/pipermail/genome/2006-December/012312.html
- http://www.cse.ucsc.edu/pipermail/genome/2006-February/009847.html
- http://www.cse.ucsc.edu/pipermail/genome/2005-October/008822.html
Is there a size limit for custom tracks?
How do I find non-protein-coding genes?
I have a list of identifiers, how do I find the coordinates?
Format of chain, chainLink and net tables
How do I get a table of restriction enzymes?
Note that the utility findCutters is better than oligoMatch: oligoMatch has no good way of finding AsuI (G'GnC_C). It's possible but it would need to be run four times: GGACC, GGCCC, GGGCC, GGTCC and the output combined. findCutters does it all in one command.
GO
How do I find orthologous genes (using TransMap)
How do I find telomeres and centromeres?
Questions about SNPs?
Instructions for downloading jksrc
I want to compare species A with species B
To tell a user we would be willing to add a permanent custom track
Is multiwig functionality available for custom tracks
Why do some gene have startCodon = stopCodon (thickStart = thickEnd)?