qiime 1.8.0+dfsg-4 source package in Ubuntu

Changelog

qiime (1.8.0+dfsg-4) unstable; urgency=medium


  * d/copyright: Fix missing licenses
    Closes: #758026

 -- Andreas Tille <email address hidden>  Wed, 13 Aug 2014 19:19:10 +0200

Upload details

Uploaded by:
Debian Med on 2014-08-13
Uploaded to:
Sid
Original maintainer:
Debian Med
Architectures:
any all
Section:
science
Urgency:
Medium Urgency

See full publishing history Publishing

Series Pocket Published Component Section
Xenial release on 2015-10-22 universe science
Wily release on 2015-05-04 universe science
Vivid release on 2014-10-26 universe science

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File Size SHA-256 Checksum
qiime_1.8.0+dfsg-4.dsc 2.2 KiB ad0fa33e6f2047613dca4ebd343f696c5824eb38b6d63cb8709903df930ea00e
qiime_1.8.0+dfsg.orig.tar.xz 14.0 MiB cb9572d566a793ebaf47ecca4de0df895a991e97986594554cb927bb48d06a79
qiime_1.8.0+dfsg-4.debian.tar.xz 22.6 KiB 7adc5b7c55546b793e65e118fd4420a6732e18d6de3096c324c3f6c31729af6f

Available diffs

No changes file available.

Binary packages built by this source

qiime: Quantitative Insights Into Microbial Ecology

 QIIME (canonically pronounced ‘Chime’) is a pipeline for performing
 microbial community analysis that integrates many third party tools which
 have become standard in the field. A standard QIIME analysis begins with
 sequence data from one or more sequencing platforms, including
  * Sanger,
  * Roche/454, and
  * Illumina GAIIx.
 With all the underlying tools installed,
 of which not all are yet available in Debian (or any other Linux
 distribution), QIIME can perform
  * library de-multiplexing and quality filtering;
  * denoising with PyroNoise;
  * OTU and representative set picking with uclust, cdhit, mothur, BLAST,
    or other tools;
  * taxonomy assignment with BLAST or the RDP classifier;
  * sequence alignment with PyNAST, muscle, infernal, or other tools;
  * phylogeny reconstruction with FastTree, raxml, clearcut, or other tools;
  * alpha diversity and rarefaction, including visualization of results,
    using over 20 metrics including Phylogenetic Diversity, chao1, and
    observed species;
  * beta diversity and rarefaction, including visualization of results,
    using over 25 metrics including weighted and unweighted UniFrac,
    Euclidean distance, and Bray-Curtis;
  * summarization and visualization of taxonomic composition of samples
    using pie charts and histograms
 and many other features.
 .
 QIIME includes parallelization capabilities for many of the
 computationally intensive steps. By default, these are configured to
 utilize a mutli-core environment, and are easily configured to run in
 a cluster environment. QIIME is built in Python using the open-source
 PyCogent toolkit. It makes extensive use of unit tests, and is highly
 modular to facilitate custom analyses.

qiime-data: Quantitative Insights Into Microbial Ecology (supporting data)

 This package contains the GreenGenes core data set needed by QIIME for PyNAST
 alignment and filtering, but you will still need to download the appropriate
 database for taxonomic assignment.

qiime-doc: Quantitative Insights Into Microbial Ecology (tutorial)

 QIIME (canonically pronounced ‘Chime’) is a pipeline for performing
 microbial community analysis that integrates many third party tools which
 have become standard in the field. A standard QIIME analysis begins with
 sequence data from one or more sequencing platforms, including
  * Sanger,
  * Roche/454, and
  * Illumina GAIIx.
 With all the underlying tools installed,
 of which not all are yet available in Debian (or any other Linux
 distribution), QIIME can perform
  * library de-multiplexing and quality filtering;
  * denoising with PyroNoise;
  * OTU and representative set picking with uclust, cdhit, mothur, BLAST,
    or other tools;
  * taxonomy assignment with BLAST or the RDP classifier;
  * sequence alignment with PyNAST, muscle, infernal, or other tools;
  * phylogeny reconstruction with FastTree, raxml, clearcut, or other tools;
  * alpha diversity and rarefaction, including visualization of results,
    using over 20 metrics including Phylogenetic Diversity, chao1, and
    observed species;
  * beta diversity and rarefaction, including visualization of results,
    using over 25 metrics including weighted and unweighted UniFrac,
    Euclidean distance, and Bray-Curtis;
  * summarization and visualization of taxonomic composition of samples
    using pie charts and histograms
 and many other features.
 .
 QIIME includes parallelization capabilities for many of the
 computationally intensive steps. By default, these are configured to
 utilize a mutli-core environment, and are easily configured to run in
 a cluster environment. QIIME is built in Python using the open-source
 PyCogent toolkit. It makes extensive use of unit tests, and is highly
 modular to facilitate custom analyses.
 .
 This package contains the documentation and a tutorial.