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microseq (version 1.2)

Basic Biological Sequence Analysis

Description

Basic functions for microbial sequence data analysis.

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Version

Install

install.packages('microseq')

Monthly Downloads

416

Version

1.2

License

GPL-2

Maintainer

Lars Snipen

Last Published

January 13th, 2017

Functions in microseq (1.2)

iupac2regex

Ambiguity symbol conversion
msalign

Multiple alignment
muscle

Multiple alignment using MUSCLE
cmalign

Multiple alignment using Infernal
microseq-package

Basic Biological Sequence Analysis
gregexpr

Extended gregexpr with substring retrieval
amplicon

Primer matching
plot.Fastq

Plotting and summary of Fastq objects
msaTrim

Trimming multiple sequence alignments
plot.Fasta

Plotting and summary of Fasta objects
readFasta

Read and write FASTA files
readFastq

Read and write FASTQ files
translate

Translation according to the standard genetic code
reverseComplement

Reverse-complementation of DNA