manipulate datasets encoded as 2-D matrices with annotation (first) row and (first) column
Class for importing and querying expression dataasets organized as a column- and row-annotated matrix.
Expression datasets contain the numeric results of one or more samples derived from microarray assays. Common to each of the assays is the specific platform (microarray). The dataset can be regarded as a table with rows and columns. Each column represents a single assay, and each row contains the assay results for a specific probe on the assay platform. Thus, the values in any given row are those obtained from the same probe location on the platform. These are referred to as expression profiles.
A dataset can be regarded as a table, such as this one:
|probe_id||HSC 1||HSC 2||NK 1||NK 2|
Expression datasets, with rare exception, are stored in text (i.e. flat) files that have the following format:
Some datasets may differ from this format. For instance, there may be no (first) row of labels, or the data may be of some format other than floating point. Provision is made for handling these arguably special cases. However, the default settings for instantiating Matricks classes makes the foregoing assumptions about the contents of raw source data. It is further assumed that the source dataset is encoded in ASCII strings, requiring the conversion of all numeric data to float type objects.
Matricks selection operations generally return Matricks objects. These can be iterated, row-wise, much like lists or tuples, to access individual expression profiles, the contents of which can be retrieved using list / tuple semantics.
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|File Name & Checksum SHA256 Checksum Help||Version||File Type||Upload Date|
|matricks-0.3.20-py2.6.egg (136.6 kB) Copy SHA256 Checksum SHA256||2.6||Egg||Jul 25, 2012|
|matricks-0.3.20-py2.7.egg (135.5 kB) Copy SHA256 Checksum SHA256||2.7||Egg||Jul 25, 2012|