Documentation
¶
Overview ¶
Package DnaDesign is a Go package for engineering organisms.
Browse our subpackages to find the functionality and documentation you need: https://pkg.go.dev/github.com/koeng101/dnadesign/lib#section-directories
Source Files
Directories
¶
| Path | Synopsis |
|---|---|
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Package align is a package for aligning (comparing) DNA, RNA, and protein sequences.
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Package align is a package for aligning (comparing) DNA, RNA, and protein sequences. |
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mash
Package mash is for sketching sequence data to make it easier to compare to other sequence.
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Package mash is for sketching sequence data to make it easier to compare to other sequence. |
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matrix
Package matrix provides a variety of alignment scoring matrices for sequence alignment.
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Package matrix provides a variety of alignment scoring matrices for sequence alignment. |
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megamash
Package megamash is an implementation of the megamash algorithm.
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Package megamash is an implementation of the megamash algorithm. |
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Package alphabet provides structs for defining biological sequence alphabets.
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Package alphabet provides structs for defining biological sequence alphabets. |
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Package bio provides utilities for reading and writing sequence data.
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Package bio provides utilities for reading and writing sequence data. |
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fasta
Package fasta contains fasta parsers and writers.
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Package fasta contains fasta parsers and writers. |
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fastq
Package fastq contains fastq parsers and writers.
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Package fastq contains fastq parsers and writers. |
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genbank
Package genbank provides genbank parsers and writers.
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Package genbank provides genbank parsers and writers. |
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pileup
Package pileup contains pileup parsers and writers.
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Package pileup contains pileup parsers and writers. |
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rebase
Package rebase contains a rebase parser for rebase data dump #31.
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Package rebase contains a rebase parser for rebase data dump #31. |
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sam
Package sam implements a SAM file parser and writer.
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Package sam implements a SAM file parser and writer. |
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slow5
Package slow5 contains slow5 parsers and writers.
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Package slow5 contains slow5 parsers and writers. |
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slow5/svb/cpuid
Package cpuid provides access to the information available through the CPUID instruction.
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Package cpuid provides access to the information available through the CPUID instruction. |
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uniprot
Package uniprot provides an XML parser for Uniprot data dumps.
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Package uniprot provides an XML parser for Uniprot data dumps. |
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Package checks provides utilities to check for certain properties of a sequence.
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Package checks provides utilities to check for certain properties of a sequence. |
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Package clone provides functions for cloning DNA sequences.
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Package clone provides functions for cloning DNA sequences. |
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Package fold contains DNA and RNA folding algorithms.
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Package fold contains DNA and RNA folding algorithms. |
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mfe/secondary_structure
Package secondary_structure provides the structs needed to contain information about a RNA's secondary structure
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Package secondary_structure provides the structs needed to contain information about a RNA's secondary structure |
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zuker
Package zuker is a package for folding DNA and RNA sequences into secondary structures with the zuker algorithm.
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Package zuker is a package for folding DNA and RNA sequences into secondary structures with the zuker algorithm. |
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Package primers provides utilities for creating primers and DNA barcodes.
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Package primers provides utilities for creating primers and DNA barcodes. |
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pcr
Package pcr designs and simulates simple PCR reactions.
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Package pcr designs and simulates simple PCR reactions. |
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Package random provides functions to generate random DNA, RNA, and protein sequences.
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Package random provides functions to generate random DNA, RNA, and protein sequences. |
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Package seqhash contains the seqhash algorithm.
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Package seqhash contains the seqhash algorithm. |
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Package sequencing contains functions associated with handling sequencing data.
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Package sequencing contains functions associated with handling sequencing data. |
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nanopore
Package nanopore contains data associated with nanopore sequencing.
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Package nanopore contains data associated with nanopore sequencing. |
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Package synthesis provides utilities for preparing DNA to be synthesized.
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Package synthesis provides utilities for preparing DNA to be synthesized. |
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codon
Package codon is a package for optimizing codons for expression when synthesizing DNA.
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Package codon is a package for optimizing codons for expression when synthesizing DNA. |
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fix
Package fix fixes synthetic DNA molecules in preparation for synthesis.
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Package fix fixes synthetic DNA molecules in preparation for synthesis. |
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fragment
Package fragment optimally fragments DNA for GoldenGate systems.
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Package fragment optimally fragments DNA for GoldenGate systems. |
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Package transform provides functions for transforming sequences.
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Package transform provides functions for transforming sequences. |
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variants
Package variants contains a function for generating all variants of a sequence.
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Package variants contains a function for generating all variants of a sequence. |
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