sci-biology/bambus (science)

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Package Information

Description:
Bambus is the first general purpose scaffolder that is publicly available as an open source package. While most other scaffolders are closely tied to a specific assembly program, Bambus accepts the output from most current assemblers and provides the user with great flexibility in choosing the scaffolding parameters. In particular, Bambus is able to accept contig linking data other than specified by mate-pairs. Such sources of information include alignment to a reference genome (Bambus can directly use the output of MUMmer), physical mapping data, or information about gene synteny.
Homepage:
https://sourceforge.net/apps/mediawiki/amos/index.php?title=AMOS https://sourceforge.net/projects/amos/files/bambus
License:
Artistic

Versions

Version EAPI Keywords Slot
2.33-r2 8 ~amd64 ~x86 0

Metadata

Description

Maintainers

Upstream

Raw Metadata XML
<pkgmetadata>
	<maintainer type="person">
		<email>mmokrejs@fold.natur.cuni.cz</email>
		<name>Martin Mokrejs</name>
	</maintainer>
	<maintainer type="project">
		<email>sci-biology@gentoo.org</email>
		<name>Gentoo Biology Project</name>
	</maintainer>
	<longdescription>Bambus is the first general purpose scaffolder that is publicly available as an open source package. While most other scaffolders are closely tied to a specific assembly program, Bambus accepts the output from most current assemblers and provides the user with great flexibility in choosing the scaffolding parameters. In particular, Bambus is able to accept contig linking data other than specified by mate-pairs. Such sources of information include alignment to a reference genome (Bambus can directly use the output of MUMmer), physical mapping data, or information about gene synteny.</longdescription>
	<upstream>
		<remote-id type="sourceforge">mira-assembler</remote-id>
	</upstream>
</pkgmetadata>

Lint Warnings

Files

Manifest

Type File Size Versions
DIST scaffolding_MIRA_BAMBUS.pdf 181237 bytes 2.33-r2
Unmatched Entries
Type File Size
DIST bambus-2.33.tar.gz 504535 bytes