Support for reading .fa.gz files.

Support for reading .fastq.gz files.

A parser which unzips the file and then passes the work off to an inner parser.

.GZ based ISequenceParser

A class that has a name and that can create streams. It can be used as a generalization of file names, FileInfo, reading data from a string, reading data from a resource, etc.

SequenceFormatter class is an abstraction class which provides instances and lists of all Formatter currently supported by Bio.

SequenceParsers class is an abstraction class which provides instances and lists of all Parsers currently supported by Bio.

SequenceRangeFormatter class is an abstraction class which provides instances and lists of all Range-Formatter currently supported by .NET Bio.

SequenceRangeParsers class is an abstraction class which provides instances and lists of all Range-Parsers currently supported by .NET Bio.

Interface that defines the common properties for a formatter. All other formatters must extend this Interface.

Generic formatter for specific types

Interface that has a name and that can create streams. It can be used as a generalization of file names, FileInfo, reading data from a string, reading data from a resource, etc.

Common interface for all parsers. Used in Framework abstraction layer and auto registration mechanism.

Typed interface for parsers which return some data structure.

Extends IParser to include an alphabet

Implementations of this interface write a PhylogeneticTree to a particular location, usually a file. The output is formatted according to the particular file format. A method is also provided for quickly accessing the content in string form for applications that do not need to first write to file.

Implementations of this interface are designed to parse a phylogenetic tree file format to produce a PhylogeneticTree object model.

Implementations of this interface write an ISequenceAlignment to a particular location, usually a file. The output is formatted according to the particular file format. A method is also provided for quickly accessing the content in string form for applications that do not need to first write to file.

Interface that defines a contract for parser to parse sequence alignment files. For advanced users, the ability to select an encoding for the internal memory representation is provided. Implementations also have a default encoding for each alphabet that may be encountered.

Implementations of this interface write an ISequence to a particular location, usually a file. The output is formatted according to the particular file format.

Base ISequenceParser

Writes out SequenceRange lists or groupings to a data stream.

The interface defining the methods for parsing ISequenceRange objects from files or readers.

Interface for exposing a collection of SnpItems as an enumerator with ability to skip to specific chromosome number and position.