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Project description
GeneVecTools
Reading in Variety of Genetic File Types
Vector Embedding Algorithms
Byte Array Encoders
Clustering and Preprocessing Steps for Compression
Similarity Search Tools for FASTA/FASTQ files
Installing
Tester files: https://drive.google.com/drive/folders/1MGkz1QyjGcEF8q8RDWTZXR7Z2k0K1VLC?usp=sharing
.. code-block:: bash
pip install GeneVecTools
Usage
.. code-block:: bash
>>> from GeneVecTools import SimSearch
>>> dir = "/Users/danielum/Documents/MSCS/Spring_2022/COMS_E6901/VG/VG/sample/fastq/small_cDNA_Sequences_pbmc_1k_v2_S1_L002_R2_001.fastq"
>>> VECSS = SimSearch.VecSS(dir)
>>> sequences = VECSS.readq()
>>> print(VECSS.unembed(VECSS.embed(VECSS.s)) == VECSS.s)
'True'
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