Package: gasic (0.0.r19-8)

[ Source: gasic  ]

genome abundance similarity correction

One goal of sequencing based metagenomic analysis is the quantitative taxonomic assessment of microbial community compositions. However, the majority of approaches either quantify at low resolution (e.g. at phylum level) or have severe problems discerning highly similar species. Yet, accurate quantification on species level is desirable in applications such as metagenomic diagnostics or community comparison. GASiC is a method to correct read alignment results for the ambiguities imposed by similarities of genomes. It has superior performance over existing methods.

Other Packages Related to gasic

• dep: bowtie

  Ultrafast memory-efficient short read aligner

• dep: bowtie2

  ultrafast memory-efficient short read aligner

• dep: bwa

  Burrows-Wheeler Aligner

• dep: python3

  interactive high-level object-oriented language (default python3 version)

• dep: python3-biopython

  Python3 library for bioinformatics

• dep: python3-matplotlib

  Python based plotting system in a style similar to Matlab

• dep: python3-numpy

  Fast array facility to the Python language (Python 3)

• dep: python3-pysam

  interface for the SAM/BAM sequence alignment and mapping format (Python 3)

• dep: python3-scipy

  scientific tools for Python 3

• dep: seqan-apps

  C++ library for the analysis of biological sequences

• sug: gasic-examples

  genome abundance similarity correction (example data)

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Architecture	Package Size	Installed Size	Files
all	20.2 kB	80.0 kB	[list of files]