Script: Getting information about SRX experiment ID from NCBI database

Tool:Script: Getting information about SRX experiment ID from NCBI database

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3.8 years ago

jayeshkumarsundaram ▴ 10

The following is the link to the script: Gist github link

Create a file named "list_of_all_srx.txt" in the same directory as the script file and this file should have a list of single SRX ID as entries in every line.

Script also generates an output file named "list_of_all_srx_with_info_on_seq_types_SRRs_title.txt" which has information on the list of SRRs, number of reads in .fastq file and sequencing type

Note: This script was tested in both Mac OS and linux OS and it requires "re" and "requests" libraries in python.

next-gen RNA-Seq • 871 views

ADD COMMENT • link updated 21 months ago by Ram 44k • written 3.8 years ago by jayeshkumarsundaram ▴ 10

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Please add usage information at top of your script.

ADD REPLY • link 3.8 years ago by GenoMax 147k

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Thanks! I added the usage information in the script as well

ADD REPLY • link 3.8 years ago by jayeshkumarsundaram ▴ 10

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jayeshkumarsundaram I suggest that instead of multiple posts with sparse content you make one single post, add your scripts, with usage information.

ADD REPLY • link 3.8 years ago by ATpoint 85k

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