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microseq (version 1.2.3)

Basic Biological Sequence Handling

Description

Basic functions for microbial sequence data analysis. The idea is to use the basic R data structures as much as possible, without building complex data types.

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Version

Install

install.packages('microseq')

Monthly Downloads

416

Version

1.2.3

License

GPL-2

Maintainer

Lars Snipen

Last Published

July 11th, 2019

Functions in microseq (1.2.3)

muscle

Multiple alignment using MUSCLE

readFastq

Read and write FASTQ files

reverseComplement

Reverse-complementation of DNA

plot.Fasta

Plotting and summary of Fasta objects

iupac2regex

Ambiguity symbol conversion

microseq-package

Basic Biological Sequence Analysis

plot.Fastq

Plotting and summary of Fastq objects

readFasta

Read and write FASTA files

translate

Translation according to the standard genetic code

gregexpr

Extended gregexpr with substring retrieval

cmalign

Multiple alignment using Infernal

msaTrim

Trimming multiple sequence alignments

msalign

Multiple alignment