staden 2.0.0+b11-4build2 source package in Ubuntu

Changelog

staden (2.0.0+b11-4build2) groovy; urgency=medium

  * No-change rebuild against libstaden-read14

 -- Graham Inggs <email address hidden>  Sun, 21 Jun 2020 14:19:49 +0000

Upload details

Uploaded by:
Graham Inggs
Uploaded to:
Groovy
Original maintainer:
Debian Med
Architectures:
any all
Section:
misc
Urgency:
Medium Urgency

See full publishing history Publishing

Series Pocket Published Component Section
Jammy release universe misc
Impish release universe misc
Hirsute release universe misc
Groovy release universe misc

Downloads

File Size SHA-256 Checksum
staden_2.0.0+b11.orig.tar.gz 4.5 MiB cd7ee17626c25bc845ebd3f6311b5a538815fb73a0dfef2393001bf579ac9649
staden_2.0.0+b11-4build2.debian.tar.xz 16.1 KiB 6d1c31aa63d938bf41bd72b88d58869366efce7eea0d41dcd21b021247727669
staden_2.0.0+b11-4build2.dsc 2.2 KiB 52b34c87645fd81307b86d9f763ac84b79027831396cac370bf18264b93f015c

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Binary packages built by this source

staden: DNA sequence assembly (Gap4/Gap5), editing and analysis tools

 Staden is a fully developed set of DNA sequence assembly (Gap4 and
 Gap5), editing and analysis tools (Spin).
 .
 Gap4 performs sequence assembly, contig ordering based on read pair
 data, contig joining based on sequence comparisons, assembly checking,
 repeat searching, experiment suggestion, read pair analysis and contig
 editing. It has graphical views of contigs, templates, readings and
 traces which all scroll in register. Contig editor searches and
 experiment suggestion routines use confidence values to calculate the
 confidence of the consensus sequence and hence identify only places
 requiring visual trace inspection or extra data. The result is
 extremely rapid finishing and a consensus of known accuracy.
 .
 Pregap4 provides a graphical user interface to set up the processing
 required to prepare trace data for assembly or analysis, and automates
 these processes.
 .
 Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and
 ZTR trace files.
 .
 Prefinish analyses partially completed sequence assemblies and suggests
 the most efficient set of experiments to help finish the project.
 .
 Tracediff and hetscan automatically locate mutations by comparing trace
 data against reference traces. They annotate the mutations found ready
 for viewing in gap4.
 .
 Spin analyses nucleotide sequences to find genes, restriction sites,
 motifs, etc. It can perform translations, find open reading frames,
 count codons, etc. Many results are presented graphically and a sliding
 sequence window is linked to the graphics cursor. Spin also compares
 pairs of sequences in many ways. It has very rapid dot matrix analysis,
 global and local alignment algorithms, plus a sliding sequence window
 linked to the graphical plots. It can compare nucleic acid against
 nucleic acid, protein against protein, and protein against nucleic
 acid.

staden-common: Architecture independent files for Staden

 Staden is a fully developed set of DNA sequence assembly (Gap4 and
 Gap5), editing and analysis tools (Spin).
 .
 Gap4 performs sequence assembly, contig ordering based on read pair
 data, contig joining based on sequence comparisons, assembly checking,
 repeat searching, experiment suggestion, read pair analysis and contig
 editing. It has graphical views of contigs, templates, readings and
 traces which all scroll in register. Contig editor searches and
 experiment suggestion routines use confidence values to calculate the
 confidence of the consensus sequence and hence identify only places
 requiring visual trace inspection or extra data. The result is
 extremely rapid finishing and a consensus of known accuracy.
 .
 Pregap4 provides a graphical user interface to set up the processing
 required to prepare trace data for assembly or analysis, and automates
 these processes.
 .
 Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and
 ZTR trace files.
 .
 Prefinish analyses partially completed sequence assemblies and suggests
 the most efficient set of experiments to help finish the project.
 .
 Tracediff and hetscan automatically locate mutations by comparing trace
 data against reference traces. They annotate the mutations found ready
 for viewing in gap4.
 .
 Spin analyses nucleotide sequences to find genes, restriction sites,
 motifs, etc. It can perform translations, find open reading frames,
 count codons, etc. Many results are presented graphically and a sliding
 sequence window is linked to the graphics cursor. Spin also compares
 pairs of sequences in many ways. It has very rapid dot matrix analysis,
 global and local alignment algorithms, plus a sliding sequence window
 linked to the graphical plots. It can compare nucleic acid against
 nucleic acid, protein against protein, and protein against nucleic
 acid.
 .
 This package contains the architecture independent data files and
 scripts that come with the Staden package.

staden-dbgsym: debug symbols for staden