microseq-package | Basic Biological Sequence Analysis |
backTranslate | Replace amino acids with codons |
findGenes | Finding coding genes |
findOrfs | Finding ORFs in genomes |
findrRNA | Finding rRNA genes |
gff2fasta | Retrieving annotated sequences |
gregexpr | Extended 'gregexpr' with substring retrieval |
iupac2regex | Ambiguity symbol conversion |
lorfs | Longest ORF |
microseq | Basic Biological Sequence Analysis |
msa2mat | Convert alignment to matrix |
msalign | Multiple alignment |
msaTrim | Trimming multiple sequence alignments |
muscle | Multiple alignment using MUSCLE |
orfLength | Length of ORF |
orfSignature | Signature for each ORF |
readFasta | Read and write FASTA files |
readFastq | Read and write FASTQ files |
readGFF | Reading and writing GFF-tables |
regex2iupac | Ambiguity symbol conversion |
reverseComplement | Reverse-complementation of DNA |
translate | Translation according to the standard genetic code |
writeFasta | Read and write FASTA files |
writeFastq | Read and write FASTQ files |
writeGFF | Reading and writing GFF-tables |