mira-assembler binary package in Ubuntu Xenial ppc64el

 The mira genome fragment assembler is a specialised assembler for
 sequencing projects classified as 'hard' due to high number of similar
 repeats. For expressed sequence tags (ESTs) transcripts, miraEST is
 specialised on reconstructing pristine mRNA transcripts while
 detecting and classifying single nucleotide polymorphisms (SNP)
 occurring in different variations thereof.
 .
 The assembler is routinely used for such various tasks as mutation
 detection in different cell types, similarity analysis of transcripts
 between organisms, and pristine assembly of sequences from various
 sources for oligo design in clinical microarray experiments.
 .
 The package provides the following executables:
 Binaries provided:
  * mira: for assembly of genome sequences
  * miramem: estimating memory needed to assemble projects. Realised through
    link to mira.
  * convert_project: for converting project file types into other types
  * caf2fasta, caf2gbf, caf2text, caf2html, gbf2caf and gbf2fasta are some
    frequently used file converters (realised through links to convert_project)
  * scftool: set of tools useful when working with SCF trace files
  * fastatool: set of tools useful when working with FASTA trace files
 .
 Scripts provided:
  * fasta2frag: fragmenting sequences into smaller, overlapping
    subsequences. Useful for simulating shotgun sequences. Can create
    subsequences in both directions (/default) and also paired-end sequences.
  * fastaselect: given a FASTA file (and possibly a FASTA quality file) and
    a file with names of reads, select the sequences from the input FASTA (and
    quality file) and writes them to an output FASTA
  * fastqselect: like fastaselect, only for FASTQ
  * fixACE4consed: Consed has a bug which incapacitates it from reading
    consensus tags in ACE files written by the MIRA assembler (and possibly
    other programs). This script massages an ACE file so that consed can read
    the consensus tags.

Publishing history

Date Status Target Pocket Component Section Priority Phased updates Version
  2016-02-08 18:54:29 UTC Published Ubuntu Xenial ppc64el release universe science Optional 4.9.5-5
  • Published on 2016-02-08
  • Copied from ubuntu xenial-proposed ppc64el in Primary Archive for Ubuntu
  Deleted Ubuntu Xenial ppc64el proposed universe science Optional 4.9.5-5
  • Removal requested on 2016-02-08.
  • Deleted on 2016-02-08 by Ubuntu Archive Robot

    moved to release

  • Published on 2016-02-08
  2016-02-08 18:55:14 UTC Superseded Ubuntu Xenial ppc64el release universe science Optional 4.9.5-4
  • Removed from disk on 2016-02-10.
  • Removal requested on 2016-02-09.
  • Superseded on 2016-02-08 by ppc64el build of mira 4.9.5-5 in ubuntu xenial PROPOSED
  • Published on 2016-02-03
  • Copied from ubuntu xenial-proposed ppc64el in Primary Archive for Ubuntu
  2016-02-10 00:10:10 UTC Deleted Ubuntu Xenial ppc64el proposed universe science Optional 4.9.5-4
  • Removed from disk on 2016-02-10.
  • Removal requested on 2016-02-03.
  • Deleted on 2016-02-03 by Ubuntu Archive Robot

    moved to release

  • Published on 2016-02-02
  2016-02-03 00:55:00 UTC Superseded Ubuntu Xenial ppc64el release universe science Optional 4.9.5-3
  • Removed from disk on 2016-02-04.
  • Removal requested on 2016-02-04.
  • Superseded on 2016-02-03 by ppc64el build of mira 4.9.5-4 in ubuntu xenial PROPOSED
  • Published on 2016-01-27
  • Copied from ubuntu xenial-proposed ppc64el in Primary Archive for Ubuntu
  2016-02-04 06:10:13 UTC Deleted Ubuntu Xenial ppc64el proposed universe science Optional 4.9.5-3
  • Removed from disk on 2016-02-04.
  • Removal requested on 2016-01-27.
  • Deleted on 2016-01-27 by Ubuntu Archive Robot

    moved to release

  • Published on 2016-01-27
  2016-01-27 19:16:42 UTC Superseded Ubuntu Xenial ppc64el release universe science Optional 4.9.5-2
  • Removed from disk on 2016-01-29.
  • Removal requested on 2016-01-28.
  • Superseded on 2016-01-27 by ppc64el build of mira 4.9.5-3 in ubuntu xenial PROPOSED
  • Published on 2015-12-05
  • Copied from ubuntu xenial-proposed ppc64el in Primary Archive for Ubuntu
  2016-01-29 00:10:10 UTC Deleted Ubuntu Xenial ppc64el proposed universe science Optional 4.9.5-2
  • Removed from disk on 2016-01-29.
  • Removal requested on 2015-12-05.
  • Deleted on 2015-12-05 by Ubuntu Archive Robot

    moved to release

  • Published on 2015-12-04
  2015-12-05 08:00:28 UTC Superseded Ubuntu Xenial ppc64el release universe science Optional 4.9.5-1build1
  • Removed from disk on 2018-01-22.
  • Removal requested on 2015-12-06.
  • Superseded on 2015-12-05 by ppc64el build of mira 4.9.5-2 in ubuntu xenial PROPOSED
  • Published on 2015-10-22
  • Copied from ubuntu wily-proposed ppc64el in Primary Archive for Ubuntu

Source package