SFTP-tools

These tools are used to make searching and extracting data easier

Install the required packages by using the following command

  pip install -r requirements.txt

Search Tool

Requirements

• Search file and Metadata file must be in tsv format
• Search file must contain the header ids as shown below

ids
search term 1
search term 2
search term 3
...
search term n

Usage

  python tools/search_tool.py --metadata <Location of metadata file> --search <Location of search file>

Help

  python tools/search_tool.py --help

Split sequence Tool

Requirements

• Selected file must be in tsv format
• Selected file must contain the header ids as shown below

ids
header 1
header 2
header 3
...
header n

Usage

  python tools/split_sequence_tool.py --fasta <Location of fasta file> --selected <Location of selected header file>

Help

  python tools/split_sequence_tool.py --help