Mycoplasma pneumoniae M129 and FH reference genome
Hello! I noticed that Mycoplasma pneumonia M129 and FH are not found in the reference genome in Galaxy. Would it be possible to have both of those in there? Thanks, David
Hello David, The genome for Mycoplasma pneumonia M129 is available as a reference genome (see "attributes" assignment too via the pencil icon), however it is not yet available in all NGS tools. We add both M129 and Mycoplasma pneumonia FH to our list of new genomes to process through all tool. To confirm, this would be the correct source for the FH strain? http://www.ncbi.nlm.nih.gov/bioproject/46155 Meanwhile, if you would like to work with the genomes immediately, they can be loaded into your history (use FTP) and used as a reference genome from that source with most tools. Hopefully this is helpful! Best, Jen Galaxy team On 5/23/11 12:00 PM, David K Crossman wrote:
Hello!
I noticed that Mycoplasma pneumonia M129 and FH are not found in the reference genome in Galaxy. Would it be possible to have both of those in there?
Thanks,
David
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
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Jen, Thanks for the useful tips! Yes, the NCBI bioproject link is the correct source for the FH strain. Thanks, David -----Original Message----- From: Jennifer Jackson [mailto:jen@bx.psu.edu] Sent: Tuesday, May 31, 2011 10:07 AM To: David K Crossman Cc: galaxy-user@lists.bx.psu.edu Subject: Re: [galaxy-user] Mycoplasma pneumoniae M129 and FH reference genome Hello David, The genome for Mycoplasma pneumonia M129 is available as a reference genome (see "attributes" assignment too via the pencil icon), however it is not yet available in all NGS tools. We add both M129 and Mycoplasma pneumonia FH to our list of new genomes to process through all tool. To confirm, this would be the correct source for the FH strain? http://www.ncbi.nlm.nih.gov/bioproject/46155 Meanwhile, if you would like to work with the genomes immediately, they can be loaded into your history (use FTP) and used as a reference genome from that source with most tools. Hopefully this is helpful! Best, Jen Galaxy team On 5/23/11 12:00 PM, David K Crossman wrote:
Hello!
I noticed that Mycoplasma pneumonia M129 and FH are not found in the reference genome in Galaxy. Would it be possible to have both of those in there?
Thanks,
David
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
-- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org
participants (2)
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David K Crossman
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Jennifer Jackson