r-bioc-dada2 1.24.0+dfsg-1build1 (amd64 binary) in ubuntu kinetic
The dada2 package contributes to software workflows to interpret
sequencing data from microbiota - the relative abundance of
bacterial and/or yeast, typically measured in the gut.
It infers exact amplicon sequence
variants (ASVs) from high-throughput amplicon sequencing data,
replacing the coarser and less accurate OTU clustering approach.
The dada2 pipeline takes as input demultiplexed fastq files, and
outputs the sequence variants and their sample-wise abundances
after removing substitution and chimera errors. Taxonomic
classification is available via a native implementation of the RDP
naive Bayesian classifier, and species-level assignment to 16S
rRNA gene fragments by exact matching.
Details
- Package version:
- 1.24.0+dfsg-1build1
- Status:
- Obsolete
- Component:
- universe
- Priority:
- Optional
Downloadable files
amd64 build of r-bioc-dada2 1.24.0+dfsg-1build1 in ubuntu kinetic PROPOSED produced
these files:
Package relationships
- Depends on:
- libc6 (>= 2.34)
- libgcc-s1 (>= 3.0)
- libstdc++6 (>= 11)
- r-api-4.0
- r-api-bioc-3.15
- r-base-core (>= 4.2.1-1ubuntu1)
- r-bioc-biocgenerics (>= 0.22.0)
- r-bioc-biostrings (>= 2.42.1)
- r-bioc-iranges (>= 2.6.0)
- r-bioc-shortread (>= 1.32.0)
- r-bioc-xvector (>= 0.16.0)
- r-cran-ggplot2 (>= 2.1.0)
- r-cran-rcpp (>= 0.12.0)
- r-cran-rcppparallel (>= 4.3.0)
- r-cran-reshape2 (>= 1.4.1)
- Suggests: