Bug 231339 – maq-0.6.7.ebuild (New Package)

• Status: RESOLVED FIXED
• Product: Gentoo Linux

[Description Eli Venter 2008-07-09 20:54:28 UTC]

Maq stands for Mapping and Assembly with Quality. It builds assemblies by mapping short reads to reference sequences. Maq is a project hosted by SourceForge.net. The project page is available at http://sourceforge.net/projects/maq/. Maq is previously known as mapass2.

[Comment 1 Eli Venter 2008-07-09 20:56:08 UTC]

Created attachment 159979 [details]
maq-0.6.7.ebuild

[Comment 2 Eli Venter 2008-07-09 20:59:06 UTC]

Created attachment 159982 [details]
a metadata.xml

Suggest location in sci-biology/maq

[Comment 3 Jeremy Olexa (darkside) (RETIRED) 2008-07-09 21:24:06 UTC]

@sci-biology: any interest?

[Comment 4 Markus Dittrich (RETIRED) 2008-07-11 12:55:36 UTC]

(In reply to comment #3)
> @sci-biology: any interest?
> 

I am not much of a "sequence aligner" but this looks like
an interesting package :)

@Eli: Is maq useful by itself or do we also need the
maqindex and maqview packages as recommended on the
maq website?

Thanks,
Markus

[Comment 5 Eli Venter 2008-07-11 19:52:36 UTC]

Maq is useful by itself, producing text file mapping and snp info. maqview gives the user a simple X interface to view the short read mapping to the reference sequence, ie a basic alignment viewer. maqindex indexes the results files so maqview can efficiently show the data. I'm new to maq as well, just seems useful with the new short read technologies coming on line.

[Comment 6 Markus Dittrich (RETIRED) 2008-07-12 10:54:55 UTC]

(In reply to comment #5)
> Maq is useful by itself, producing text file mapping and snp info. maqview
> gives the user a simple X interface to view the short read mapping to the
> reference sequence, ie a basic alignment viewer. maqindex indexes the results
> files so maqview can efficiently show the data. I'm new to maq as well, just
> seems useful with the new short read technologies coming on line.
> 

Thanks for the explanation. Should we install maq-data as well?

Best,
Markus

[Comment 7 Andrey Kislyuk (RETIRED) 2009-02-26 16:55:27 UTC]

Taking package.

[Comment 8 Andrey Kislyuk (RETIRED) 2009-02-26 18:23:23 UTC]

Packages sci-biology/maq and sci-biology/maqview now in gentoo-x86. Please test. Thanks!