qiime 1.8.0+dfsg-2 source package in Ubuntu
Changelog
qiime (1.8.0+dfsg-2) unstable; urgency=medium * debian/qiime.links: Fix links to new biom_format * debian/control: - New dependency: python-qcli (this should be dropped in version 2.0 of qiime) - Recommends: python-mpi4py since this is used in some tests * debian/rules: Remove remainings from running test suite -- Andreas Tille <email address hidden> Thu, 26 Dec 2013 07:39:57 +0100
Upload details
- Uploaded by:
- Debian Med
- Uploaded to:
- Sid
- Original maintainer:
- Debian Med
- Architectures:
- any all
- Section:
- science
- Urgency:
- Medium Urgency
See full publishing history Publishing
Series | Published | Component | Section | |
---|---|---|---|---|
Trusty | release | universe | science |
Downloads
File | Size | SHA-256 Checksum |
---|---|---|
qiime_1.8.0+dfsg-2.dsc | 1.5 KiB | cf6e5ee248c27bb92a5aa4ff459aadfd9b29035f93b0381dd461eb33a29b4a26 |
qiime_1.8.0+dfsg.orig.tar.xz | 14.0 MiB | cb9572d566a793ebaf47ecca4de0df895a991e97986594554cb927bb48d06a79 |
qiime_1.8.0+dfsg-2.debian.tar.gz | 21.4 KiB | 0f5b9479019dd985005ce8ac2ec30ab011bf3d74d60db415548b4de75922af0d |
Available diffs
- diff from 1.8.0+dfsg-1 to 1.8.0+dfsg-2 (5.9 KiB)
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-doc: No summary available for qiime-doc in ubuntu vivid.
No description available for qiime-doc in ubuntu vivid.