Basic Biological Sequence Analysis


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Documentation for package ‘microseq’ version 1.2

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microseq-package Basic Biological Sequence Analysis
amplicon Primer matching
cmalign Multiple alignment using Infernal
Fasta Read and write FASTA files
gregexpr Extended 'gregexpr' with substring retrieval
iupac2regex Ambiguity symbol conversion
microseq Basic Biological Sequence Analysis
msalign Multiple alignment
msaTrim Trimming multiple sequence alignments
muscle Multiple alignment using MUSCLE
plot.Fasta Plotting and summary of 'Fasta' objects
plot.Fastq Plotting and summary of 'Fastq' objects
readFasta Read and write FASTA files
readFastq Read and write FASTQ files
regex2iupac Ambiguity symbol conversion
reverseComplement Reverse-complementation of DNA
summary.Fasta Plotting and summary of 'Fasta' objects
summary.Fastq Plotting and summary of 'Fastq' objects
translate Translation according to the standard genetic code
uipac2regex Ambiguity symbol conversion
writeFasta Read and write FASTA files
writeFastq Read and write FASTQ files