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rapmap package

rapmap 0.15.0+dfsg-4 source package in Ubuntu

Changelog

rapmap (0.15.0+dfsg-4) unstable; urgency=medium

  * d/rules: enable "-fopenmp-simd" and other SIMDe recommended build
    flags.
  * Standards-Version: 4.6.2 (routine-update)

 -- Michael R. Crusoe <email address hidden>  Mon, 25 Mar 2024 18:32:44 +0100

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Uploaded by:
Debian Med
Uploaded to:
Sid
Original maintainer:
Debian Med
Architectures:
any all
Section:
misc
Urgency:
Medium Urgency

See full publishing history Publishing

Series Pocket Published Component Section
Oracular release universe misc

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rapmap_0.15.0+dfsg-4.dsc 2.3 KiB 4550628b0f040d1d6d17c55e1b6e5ce78607e656d26fdba2f184e7fe619834b9
rapmap_0.15.0+dfsg.orig.tar.xz 610.3 KiB 17068c4f664e07bec3ade28d624e5b84ef240b116bcc39e5b495d73b2d87ede5
rapmap_0.15.0+dfsg-4.debian.tar.xz 14.7 KiB 4267978d5484cb29f0a7993df95e6ce48006b946cb6e2d8498716db7e40138af

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Binary packages built by this source

rapmap: rapid sensitive and accurate DNA read mapping via quasi-mapping

 RapMap is a testing ground for ideas in quasi-mapping / (lightweight /
 pseudo) transcriptome alignment. That means that, at this point, it is
 somewhat experimental. The develop branch will have the latest
 improvements and additions, but is not guaranteed to be stable between
 commits. Breaking changes to the master branch will be accompanied by a
 tag to the version before the breaking change. Currently, RapMap is a
 stand-alone quasi-mapper that can be used with other tools. It is also
 being used as part of Sailfish and Salmon. Eventually, the hope is to
 create and stabilize an API so that it can be used as a library from
 other tools.
 .
 Quasi-mapping / (lightweight / pseudo)-alignment is the term that is
 used here for the type of information required for certain tasks (e.g.
 transcript quantification) that is less "heavyweight" than what is
 provided by traditional alignment. For example, one may only need to
 know the transcripts / contigs to which a read aligns and, perhaps, the
 position within those transcripts rather than the optimal alignment and
 base-for-base CIGAR string that aligns the read and substring of the
 transcript. For details on RapMap (quasi-mapping in particular), please
 check out the associated paper. Note: RapMap implements both quasi-
 mapping and pseudo-alignment (originally introduced in Bray et al.
 2016), these two are not the same thing. They are distinct concepts, and
 RapMap simply happens to implement algorithms for computing both.

rapmap-dbgsym: debug symbols for rapmap
rapmap-dev: rapmap - rapid sensitive and accurate DNA read mapping (some headers)

 RapMap is a testing ground for ideas in quasi-mapping / (lightweight /
 pseudo) transcriptome alignment. That means that, at this point, it is
 somewhat experimental. The develop branch will have the latest
 improvements and additions, but is not guaranteed to be stable between
 commits. Breaking changes to the master branch will be accompanied by a
 tag to the version before the breaking change. Currently, RapMap is a
 stand-alone quasi-mapper that can be used with other tools. It is also
 being used as part of Sailfish and Salmon. Eventually, the hope is to
 create and stabilize an API so that it can be used as a library from
 other tools.
 .
 This package contains some headers and C++ source files which are
 included by package salmon and are provided here in an accessible
 way to avoid code duplication. Usually there is no reason to install
 this package except to build the salmon package.

rapmap-example-data: example data for rapmap - rapid sensitive and accurate DNA read mapping

 RapMap is a testing ground for ideas in quasi-mapping / (lightweight /
 pseudo) transcriptome alignment. That means that, at this point, it is
 somewhat experimental. The develop branch will have the latest
 improvements and additions, but is not guaranteed to be stable between
 commits. Breaking changes to the master branch will be accompanied by a
 tag to the version before the breaking change. Currently, RapMap is a
 stand-alone quasi-mapper that can be used with other tools. It is also
 being used as part of Sailfish and Salmon. Eventually, the hope is to
 create and stabilize an API so that it can be used as a library from
 other tools.
 .
 This package contains example data to test this program.