Metadata-Version: 2.1
Name: getgse
Version: 0.1.0.10
Summary: UNKNOWN
Home-page: https://github.com/Alopaxalgo/getGSE
Author: William Jeong
Author-email: wjd5480@gmail.com
License: MIT
Description: # Python package for retrieving metadata and downloading datasets from GEO
        
        ## CLI Usage
        `getgse` supports CLI(command line interface) usage.
        ```bash
        $ getgse --gse GSE81903
        ```
        
        ## Installation
        To install using pip:
        ```bash
        pip install getgse
        ```
        
        > We do not support the anaconda package yet..
        
        ### Dependencies
        ```
        pysradb>=1.4.2
        docker
        wget
        ```
        
        ## Using getgse
        ### Downloading multiple GSE project
        `getgse` supports multiple arguments like below.
        ```bash
        getgse --gse GSE148822 GSE159541 GSE159699 GSE161199 GSE164788 GSE173955 GSE174367 GSE184942 GSE136243
        [GSE148822]
        exploring SRP256885 in GSE148822
        SRRs: ['SRR11560748', 'SRR11560747', 'SRR11560746', 'SRR11560745', 'SRR11560744', 'SRR11560743', 'SRR11560742', 'SRR11560741', 'SRR11560740', 'SRR11560739', 'SRR11560738', 'SRR11560737', 'SRR11560736', 'SRR11560735', 'SRR11560734', 'SRR11560733', 'SRR11560732', 'SRR11560731', 'SRR11560730', 'SRR11560729', 'SRR11560728', 'SRR11560727', 'SRR11560726', 'SRR11560725', 'SRR11560724', 'SRR11560723', 'SRR11560722', 'SRR11560721', 'SRR11560720', 'SRR11560719', 'SRR11560718', 'SRR11560717', 'SRR11560716', 'SRR11560715', 'SRR11560714', 'SRR11560713']
        [GSE159541]
        exploring SRP287832 in GSE159541
        All files are downloaded.
        [GSE159699]
        exploring SRP287843 in GSE159699
        All files are downloaded.
        [GSE161199]
        exploring SRP292025 in GSE161199
        All files are downloaded.
        [GSE164788]
        exploring SRP301436 in GSE164788
        Downloading GSE164788/SRR13418571.fastq.gz from http://ftp.sra.ebi.ac.uk/vol1/fastq/SRR134/071/SRR13418571/SRR13418571.fastq.gz
        100% [■■■■■■■■■■■■■■■■■■■■■■■■■■■■]
        ...
        ```
Keywords: getgse
Platform: UNKNOWN
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python :: 3.7
Requires-Python: >=3.7
Description-Content-Type: text/markdown
